SUMMARY
To interpret the environment, our brain must evaluate external stimuli against internal representations from past experiences. How primary (S1) and secondary (S2) somatosensory cortices process stimuli depending on recent experiences is unclear. Using simultaneous multi-area population imaging of projection neurons and focal optogenetic inactivation, we studied mice performing a whisker-based working memory task. We find that activity reflecting current stimulus, the recollection of previous stimulus (cued recall), and stimulus category are distributed across S1 and S2. Despite this overlapping representation, S2 is important for processing cued recall responses and transmitting this to S1. S2 network properties differ from S1, wherein S2 persistently encodes cued recall and stimulus category under passive conditions. While both areas encode stimulus category, only information in S1 is important for task performance through pathways that do not necessarily include S2. These findings reveal both distributed and segregated roles for S1 and S2 in context-dependent sensory processing.
Keywords: cortico-cortical networks, population dynamics, in vivo calcium imaging, optogenetics, barrel cortex, sensory processing, working memory
eTOC
Condylis and Lowet et al. investigate the roles of primary and secondary somatosensory cortex during a tactile working memory task in mice. The authors find that during context-dependent sensory processing, handling of specific types of task-related information can occur in either a segregated or distributed manner across both areas.
INTRODUCTION
How a sensory stimulus is interpreted depends on the context in which it is perceived. This context can include other incoming stimuli from the surrounding sensory scene or can be composed of internal representations of relevant past sensory experiences as well as behavioral state (Khan and Hofer, 2018). Context-dependent sensory processing can produce new categorical representations that can reflect the integration and comparison of past and present stimuli (Miller et al., 1991; Romo et al., 2012). How the neocortex is organized to produce such category representations is largely unclear. Sensory cortices are parcellated into primary and higher areas in which neurons in higher areas can encode for increasingly invariant representations (DiCarlo et al., 2012; Kitada, 2016). However, the extent to which context-dependent sensory processing occurs in a serial, hierarchical manner (Felleman and Van Essen, 1991) or in a distributed fashion (Rumelhart and McClelland, 1987; Siegel et al., 2015) across these cortical areas remains a topic of debate.
The recent availability of increasingly large-scale, cellular recording techniques now enables a thorough survey of the diversity of neuronal responses and the dynamic interactions that exist across cortical areas (Jun et al., 2017; Sofroniew et al., 2016). New evidence suggests that encoding of task-related information can be highly distributed across related cortical areas, which supports the notion of a distributed network for perceptual processing (Chen et al., 2016; Hernandez et al., 2010; Koay et al., 2019; Minderer et al., 2019; Steinmetz et al., 2018). However, functional recordings alone do not provide insight as to whether such widespread signals are due to local processing within an area or the inheritance of information from other connected areas. Therefore, population coding and information flow between areas must also be tracked. Further, functional perturbations in each area must be performed to determine whether information available locally within an area is necessary for sensory-driven behavior.
Here, we investigated how primary (S1) and secondary (S2) whisker somatosensory cortex operate and interact to process tactile stimuli and their related context. Large-scale multi-area imaging across S1 and S2 confirms the presence of a distributed code in which both areas contain activity that reflects the present stimulus, the recall of recent stimulus representations, and stimulus context. However, through local optogenetic inactivation and activity measurements in anatomically-identified cortico-cortical projection neurons, we find that the functional roles of these areas are not identical but reflect computations where processing of recently recalled sensory stimuli can be attributed to S2 while processing of stimuli and their context is distributed in parallel across S1 and S2.
RESULTS
Simultaneous multi-area population imaging during a tactile working memory task.
In order to study context-dependent sensory processing in adult mice, we developed a head-fixed whisker-based delayed non-match to sample (DNMS) task that required the animal to compare past and present stimuli (Figure 1A). In the task, a rotating rotor was used to deflect whiskers in either an anterior or posterior direction. An initial 1.2 s ‘sample’ stimulus was presented followed by a 2s delay and then by a 1.2 s ‘test’ stimulus. During the delay period and inter-trial interval, the rotor was withdrawn to prevent whisker-rotor contact. Behavior was reported as ‘go/no-go’ in which animals licked on ‘go’ trials for a water reward (‘hit’) when the presented sample and test stimulus were non-matching and withheld licking on ‘no-go’ trials (‘correct rejection’) when the presented sample and test stimulus were matching. Misses on go trials were not rewarded, and false alarms on no-go trials were punished with an air puff and a time-out period. Expert animals could reach high performance levels (d’ = 2.79±0.12, Figure 1B), performing ~300 trials per session.
In order to investigate neuronal dynamics within and across S1 and S2 during the DNMS task, we applied a recently developed multi-area two-photon microscope (Chen et al., 2016) to simultaneously measure population calcium activity across the two areas using a red genetically encoded calcium indicator, RCaMP1.07 (Ohkura et al., 2012) (Figure 1C,D). We used viral-mediated retrograde tracers (Tervo et al., 2016) expressing Cre-dependent and Flpo-dependent fluorescent reporters to additionally identify S1S2 (‘feedforward’) and S2S1 (‘feedback’) neurons from unlabeled, not-determined neurons (S1ND and S2ND), similar to as previously described (Chen et al., 2016). By doing so, S1S2 neurons could identified by GFP expression in S1 and S2S1 neurons could be identified by mCardinal-NLS or mTagBFP2-H2B expression in S2. We imaged activity from 6603 neurons (3661 S1ND neurons, 156 S1S2 neurons, 2645 S2ND neurons, and 141 S2S1 neurons) across 6 animals for 8-14 sessions per animal. In addition, we used high-speed videography to monitor whisker kinematics during rotor touch and rotation.
Task-Related Whisker Kinematics Features
To first characterize how task stimuli drive whisker kinematics, we analyzed periods of whisker-rotor touch as well as changes in the mean whisker angle and curvature during rotor rotation (Clack et al., 2012) (Figure 2A-C). Initial whisker-rotor contact prior to rotation of the sample or test stimulus produced whisker deflections and curvature changes in the posterior direction. During the sample and test period, anterior or posterior rotation produced angle and curvature changes (Δκ) in their respective directions (Figure 2D-E). Withdraw of the rotor following anterior rotation occasionally produced additional anterior deflections and curvature changes as whiskers were pulled along with the retracting rotor (Supplemental Figure 1). Once the rotor was beyond whisker contact, whisker kinematics returned to pre-stimulus conditions suggesting that the identity of the sample stimulus was not maintained by whisker kinematic properties by the end of the delay period (angle: P = 0.25; Δκ: P = 0.06; paired t-test). Whisker kinematics were comparable between task and passive stimulation conditions suggesting that active whisking strategies observed in other tasks (Chen et al., 2015; O'Connor et al., 2010) were not a prominent behavioral feature of this particular task.
Heterogeneous Representation of Task Related Information
While whisker S1 and S2 have been observed to encode stimulus and choice-related activity (Chen et al., 2016; Kwon et al., 2016; Yamashita and Petersen, 2016; Yang et al., 2016), the extent to which more complex, context-modulated information is also present has been less investigated. To assess the diversity of task-related responses, we fit deconvolved calcium signals during the trial to three regressors that would allow us to explain a neuron’s firing rate as a combination of: 1) the sample stimulus (βsample ); 2) the test stimulus (βtest); 3) the trial category (βcategory) as inferred by activity specific to the combination of sample and test stimuli (‘non-match’ vs. ‘match’) or the animal’s choice (‘hit’ vs. ‘correct rejection’) (Figure 3A-B, Supplemental Figure 2A-D). Direction-tuned neurons were prominently observed in both the areas as indicated by neurons coding for sample information during the sample period (βsample (sample )) and test information during the test period (βtest(test)). Direction tuning was maintained in individual neurons between the sample and test period (Figure 3C, R=0.92, P < 1x10−300). While activity tuned to the sample stimulus was not maintained throughout the delay period (Supplemental Figure 2E-F, Supplemental Figure 6), sample-tuned activity re-emerged in some neurons late in the delay period (βsample (late delay)) that extended into the test period (Figure 3D, R=0.43, P < 1x10−292). In addition to sample and test stimulus information, information related to the trial category was also present during the test period (βcategory(test)). Analysis of the distribution of sample, test, and category responses shows that individual neurons vary widely in both the degree and type of information they encode (Figure 3E, Supplemental Figure 2D). These results demonstrate that S1 and S2 can encode complex sensory responses that include information about the preceding stimulus as well as context-dependent modulation of incoming stimuli resulting in categorical responses.
Cued Recall Response During the Late Delay Period
The re-emergence of sample information late in the delay period was surprising given that persistent delay activity was not observed in S1 and S2. We hypothesized that such information could represent a ‘cued recall’ in which whisker touch by the re-approaching rotor prior to test stimulus delivery served as a cue. We generated peri-touch time histograms for neuronal firing rate and sample information (Figure 4A, B). Cued recall neurons were defined as exhibiting significant ∣βsample∣ during the late delay period. These neurons showed increases in firing and sample information that were aligned to the onset of touch, demonstrating that this information followed whisker-rotor contact.
To investigate whether cued recall activity could reflect a sensorimotor cue that was present upon rotor re-approach, we examined whisker kinematics during the late delay period (Supplemental Figure 3). No differences in curvature change (∣Δκ∣) were observed during this period (P = 0.46, paired t-test). Depending on the sample stimulus, whisker angle differed by an average of 1.1° upon rotor re-contact (P < 1x10−6, paired t-test). However, the magnitude of this whisker angle difference was below behaviorally reported thresholds of perceptual discrimination (Cheung et al., 2019). To test if cued recall activity could be explained by tuning preferences to these whisker features, we compared each neuron’s selectivity to touch angle and curvature change to the strength of cued recall response. Preference to touch angle was negatively correlated with cued responses while curvature change was not correlated with cued recall response (angle: R = −0.04, P < 0.002; ∣Δκ∣: R = .004, P = 0.77) (Figure 4C, D). Cued recall neurons less reliably encoded whisker angle compared to other neurons while no different was found respect to tuning for curvature change (Figure 4E, F; angle: P < 0.02; ∣Δκ∣: P = 0.78; K-S test). Overall, these findings demonstrate that cued recall responses are not sufficiently explained by sensorimotor features alone, suggesting that they more likely reflect a retrieval of sample stimulus information from working memory.
Context-Dependent Responses During the Test Period
To understand how recalled sample stimulus and incoming test stimulus are combined to generate categorical responses, we characterized neurons that exhibited context-modulated responses to either match or non-match conditions. For each context-modulated neuron, we determined the neuron’s preferred tuning to stimulus direction (anterior or posterior) during the sample period and analyzed each trial condition with respect to the neuron’s preferred direction (Figure 5A). We assessed how the firing rate to the preferred stimulus during the test period was modulated relative to the sample period (Figure 5B, Supplemental Figure 4). For match neurons, we observed a “match enhancement” in which the preferred stimulus response on match trials increased during the test period relative to the preferred stimulus response during the sample period (Figure 5C). On non-match trials, match neurons exhibited a “non-match suppression” in which the estimated firing rate for the preferred stimulus during the test period was lower than expected given the preferred stimulus response during the sample period. While we identified one type of match neuron, we observed two types of non-match neurons. Type I non-match neurons expressed cued recall responses in the late delay period while type II neurons did not. Type II non-match neurons were characterized by both non-match enhancement and match-suppression during the test period. Type I non-match neurons differed from type II non-match neurons in that very little firing rate modulation was observed with respect to the neuron's preferred stimulus. Instead, these neurons exhibited non-match responses regardless of whether the preferred or non-preferred stimulus was presented during the sample period.
Overall, S2 neurons consistently exhibited stronger modulation compared to S1 neurons. S2 match neurons showed greater match enhancement than S1 neurons (P < 0.02, independent t-test). Type II non-match S2 neurons exhibited greater non-match enhancement but weaker match suppression compared to S1 neurons (non-match enhancement: P < 0.05; non-match suppression: P < 0.05, independent t-test). These results demonstrate a variety of forms of match and non-match signals, suggesting that different mechanisms could be involved producing context-modulated responses.
Localized and Distributed Forms of Information Processing
While stimulus, cued recall, and category information are heterogeneously represented across S1 and S2, such information could either reflect processing occurring locally in one area or processing that is distributed across areas. To resolve this, we tracked the flow of such information between areas along with area- and task-specific functional perturbations. To track information flow, responses in identified projection neurons between S1 and S2 were compared against unlabeled neurons in each of their respective areas (Figure 6A and Supplemental Figure 5A). To further delineate the role of each area during context-dependent sensory processing, we optogenetically inactivated each area by channelrhodopsin(ChR2)-mediated excitation of inhibitory neurons in task performing VGAT-ChR2-EYFP mice (Zhao et al., 2011) (n = 6). Each area was silenced at four different time points during the trial: 1) the sample period; 2) early in the delay period; 3) late in the delay period, and; 4) the test period (Figure 6B).
Stimulus direction is already present in the ventral posterior medial (VPM) thalamus, which provides input to both S1 and S2 (Bale and Petersen, 2009; Narumi et al., 2007), suggesting that this information is processed by these areas in parallel. Indeed, inactivation of either S1 or S2 during the sample period did not affect task performance. Larger fractions of S1S2 and S2S1 neurons coding for stimulus direction were found compared to S1ND and S2ND neurons, respectively (S1S2 vs. S1ND: P<0.05; S2S1 vs. S2ND, P<0.02, χ2 test:). This bidirectional flow of sensory information provides a form of compensation from inactivating one area versus the other. In contrast, inactivation of S2, but not S1, during the late delay period affected task performance (late delay inactivation vs. no inactivation: P < 0.05, paired t-test), suggesting that S2 is important for processing cued recall responses. Such responses in S2 appeared to be relayed to S1 as larger fractions of S2S1 contained cued recall responses during the late delay period compared to S2ND neurons (P<1x10−6, χ2 test). Inactivation of S1, but not S2, during the test period affected task performance (test inactivation vs. no inactivation: P < 0.002, paired t-test). While category information was found in both areas, S1S2 neurons were underrepresented compared to S1ND neurons (P<0.05, χ2 test). This suggests that category responses in S1 and S2 are computed locally in each area but only responses in S1 are important for task performance through pathways that do not include S2. Inactivation of V1 did not produce any behavioral deficits, demonstrating that the functional effects observed in S1 and S2 were specific to those areas (Supplemental Figure 5B). Overall, these results demonstrate that both localized and distributed processing schemes can combine to explain the heterogeneity of response properties across S1 and S2.
Cued Recall and Category Responses Are Modulated By Behavioral State.
To further identify differences in task-related activity between S1 and S2, we investigated how such information in each area relates to task performance, first in regards to the animal’s choice. Since error trials were relatively infrequent (<15% of trials), we used linear discriminant analysis to model the population level responses of stimulus, cued recall, and category using correct trials (hit and correct rejection) and then tested the model’s performance on error trials (miss or false alarm) (Figure 7A and Supplemental Figure 6). Encoding of stimulus information in either S1 or S2 did not depend on correct performance. However, encoding of cued recall information in both S1 and S2 decreased on miss trials but was not different during false alarm trials (S1: βsample performance: correct, 69.9±1.4%; error, 51.5±3.3%; P < 1 x 10−4, paired t-test; βcategory performance: correct, 73.2±1.6%; error, 56.0±2.0%; P <1 x 10−9, paired t-test; S2: βsample performance: correct, 68.4±1.7%; error, 50.4±3.1%; P < 1 x 10−5, paired t-test; βcategory performance: correct, 74.7±1.5%; error, 65.5±1.9%; P < 1 x 10−9, paired t-test).
Decreased model performance on miss trials could reflect periods of disengagement as opposed to an incorrect choice. To resolve this, we tested whether cued recall and category information were present during the test period during conditions of passive stimulation. Overall, cued recall information was significantly reduced compared to during task performance but remained above chance levels (Figure 7B) (S1: task vs. passive, P < 1x10−9; passive vs. shuffle, P < 1x10−5; S2: task vs. passive, P=0.0973; passive vs. shuffle, P < 1x10−6; paired t-test). However, this information was less reduced in S2 compared to S1 suggesting that cued recall responses are more robustly maintained in S2 than S1 across behavioral states (P < 0.002, independent t-test). Category responses were separated according to match (+βcategory) and non-match (−βcategory) conditions. Both were significantly reduced in S1 and S2 during passive conditions (S1: task vs. passive, P < 1x10−9; passive vs. shuffle, P < 1x10−3; S2: task vs. passive, P < 1x10−9; passive vs. shuffle, P < 1x10−5; paired t-test; Figure 7C-D). However, match responses were less reduced in S2 compared to S1 (P < 0.05; independent t-test). Non-match responses in S2 remained significantly above chance but not in S1 (S1: task vs. passive, P < 1x10−9; passive vs. shuffle, P = 0.08; S2: task vs. passive, P < 1x10−9; passive vs. shuffle, P < 0.05; paired t-test). Overall, these results demonstrate that cued recall and category responses can be behaviorally modulated in S1 and S2. However, such information is more reliably present in S2 when animals are not engaged in the task.
S1 and S2 Differ in Their Network Properties
The stronger context modulation and greater persistence of cued recall and category responses during passive conditions in S2 suggest that network properties may differ between S1 and S2. We analyzed the trial-by-trial shared response variability between neuronal pairs (also known as ‘noise correlations’), which has been linked to neurobiological mechanisms that include activation by common input, recurrent local interactions, inter-areal communication, and state-dependent modulation (Cohen and Kohn, 2011). We compared neuronal pairs with significant stimulus, cued recall, or category responses within S1, within S2, and between S1 and S2. We found no difference in correlated variability between pairs within S1 for all three response types during the test period (Figure 8A). However, in S2, neuronal pairs encoding cued recall or category responses exhibited stronger correlated variability than those encoding stimulus responses (cued recall vs. stimulus: P < 0.05, category vs. stimulus: P < 0.05; paired t-test). These differences were also observed when analyzing activity during the sample period, suggesting that this correlated variability reflects a network property of S2 that spans the trial period (Figure 8B; cued recall vs. stimulus: P < 0.05, category vs. stimulus: P < 0.05; paired t-test). No differences were observed between neuronal pairs between S1 and S2, suggesting that correlation patterns in S2 do not reflect global fluctuations. This finding indicates that correlated variability among cued recall and category neurons in S2 reflect local functional subnetworks.
Since correlated variability can influence population coding (Averbeck et al., 2006), we examined how S1 and S2 neurons participated in encoding cued recall and category responses at the population level. Using linear discriminant analysis, we assessed the population level responses of cued recall and category information while varying the fraction of simultaneously imaged neurons included in analysis. We observed that population representations of cued recall and category information in S2 are less reliably encoded with fewer neurons compared to S1 (Figure 8C, D). Together, this suggests that cued recall and category responses in S2 rely on local population interactions from functionally similar neurons. This reinforcement of responses may facilitate the encoding of such information in individual neurons across behavioral states.
DISCUSSION
In conclusion, our study resolves how local processing and inter-areal interactions between S1 and S2 can produce distributed activity patterns encoding stimulus, cued recall, and category responses. We identify both similarities and differences in how each area produces these responses and how they are relevant to task performance. During the sample period, S1 and S2 are individually dispensable for task performance, suggesting that stimulus direction is inherited from VPM (Bale and Petersen, 2009; Narumi et al., 2007) and processed in parallel in both areas. Bi-directional cortico-cortical flow of stimulus information may further provide compensation to maintain overall function when either area is inactivated during this period (Minamisawa et al., 2018). Experiments involving pathway-specific perturbation or where S1 and S2 are dually inactivated may help to support this idea.
While persistent working memory activity was not observed in S1 or S2, we have identified a cued recall response in these areas. While such a response has been observed in S2 of non-human primates (Romo and de Lafuente, 2013), this is the first report of this information in S1. We find that cued recall is specifically processed in S2 and relayed to S1. How this cued recall responses arises in S2 is unclear and the underlying mechanisms warrant future investigation. We speculate that areas encoding the working memory that are connected to S2 may alter the gain of tactile responses to facilitate the recalled response upon whisker touch, similar to as been described in the visual system (Merrikhi et al., 2017). Evidence suggests that this may further be enabled by network properties specific to S2. This is reflected in stronger functional coupling among cued recall neurons which could allow such information to more readily persist across task and passive conditions. This functional coupling could be explained by higher degrees of recurrent connectivity enabling integration of information across longer timescales (Goldin et al., 2018; Runyan et al., 2017), specific long-range input from areas related to mnemonic processing (Ahrlund-Richter et al., 2019; Kealy and Commins, 2011), or potential differences in cellular properties that enables the maintenance of information at a synaptic level (Mongillo et al., 2008).
The availability of cued recall and incoming stimulus information in both S1 and S2 suggest that each area is able to locally generate context-modulated responses in the form of match and non-match signals. Local circuit mechanisms through inhibitory interactions between match and non-match neurons have been proposed to explain such responses but warrants future investigation (Engel and Wang, 2011; Machens et al., 2005). While match and non-match responses are stronger in S2, those signals in S1 appear specifically relevant for task performance. This suggests a distinction in how each area is handling this information. Since S2 is not the major output of the categorical information that exists in S1, it suggests that S1 may play a role in relaying this information to other areas such as primary motor cortex or striatum (Chen et al., 2013; Lee et al., 2019). If this is the case, the effect of S1 inactivation during the test period reflects the importance of S1 pathways that directly connect sensory processing to decision making and motor execution, which will require further investigation.
In contrast, we propose that categorical responses in S2 may primarily be relevant for the learning and recollection of such stimulus associations that is secondarily used for decision making. This explains the behavioral effect of S2 inactivation during the late delay but not the test period. Recent studies investigating S1 and S2 during tactile detection or discrimination tasks have demonstrated that choice-related activity emerges through learning (Chen et al., 2015; Yamashita and Petersen, 2016) from an inter-areal loop in which choice-related activity in S1 is inherited from S2 (Chen et al., 2016; Kwon et al., 2016; Ni and Chen, 2017; Yang et al., 2016). We propose that choice activity described in prior tasks reflects a stimulus-outcome association rather than the decision signal driving behavior. While disambiguating the two phenomenon using previous task designs is not possible, our task reveals the importance of S2 in retrieving prior stimulus information which reflects the general ability for S2 to assign context to stimulus information whether the context is a behavioral outcome or prior sensory information. Given its connectivity as a hub in between S1 and perirhinal cortex, S2 is well situated to mediate the acquisition and reinforcement of such contextual associations. Investigating S2’s interactions with perirhinal cortex as well as during task learning will help to further resolve its role in processing stimulus context and in behavior. Overall, our results bridge a local circuit and long-range network understanding for the role of S1 and S2 during context-dependent sensory processing, expanding our view for how these areas participate in perception and behavior.
STAR METHODS
Lead Contact and Materials Availability
Further information and requests for resources and reagents should be directed to and will be fulfilled by the Lead Contact, Jerry Chen (jerry@chen-lab.org). All unique/stable reagents generated in this study are available from the Lead Contact with a completed Materials Transfer Agreement.
Experimental Model and Subject Details
Mice.
All experimental procedures were approved by the Institutional Animal Care and Use Committee for the Charles River Campus at Boston University. Imaging experiments were performed on young adult (6-8 weeks old) male C57BL/6J mice (The Jackson Laboratory). Optogenetic inactivation experiments were performed on young adult (6-8 weeks old) male VGAT-ChR2-EYFP mice (The Jackson Laboratory). Mice were housed 1–2 per cage in reverse 12 hr light cycle conditions. All handling and behavior occurred under simulated night time conditions. No statistical methods were used to predetermine sample size. Since animals constituted one experimental group, experiments were not randomized and the investigators were not blinded to allocation during experiments and outcome assessment.
Method Details
Animal preparation.
For imaging experiments, stereotaxic viral injections were performed in S1 and S2 to express the genetically encoded calcium indicator, RCaMP1.07 in both areas and to label S1S2 and S2S1 neurons. One solution was prepared containing AAV-PHP.eb-syn-RCaMP1.07, retroAAV-syn-Flpo, and AAV2.1-Ef1α-dio-eGFP (600 nL total volume, ~1 x 109 vg/ml per virus, 2:1:1 ratio by volume) was delivered into one cortical area. Another solution was prepared containing AAV-PHP.eb-syn-RCaMP1.07, retroAAV-syn-Cre, and either AAV2.1-Ef1α-fio-mCardinalNLS or AAV2.1-Ef1α-fio-mTagBFP2H2B (600 nL total volume, ~1 x 109 vg/ml per virus, 2:1:1 ratio by volume) was delivered into another cortical area. To control for potential variability in viral titer that might selectively labeling S1S2 or S2S1 neurons, the two solutions were alternately delivered between areas from animal to animal. L2/3 and L5 of S1 was targeted at 1.1mm posterior to bregma, 3.3mm lateral, 300 and 500 μm below the pial surface. L2/3 and L5 of S2 was targeted at 0.7mm posterior to bregma, 4.2 lateral, 300 and 500 μm below the pial surface. For both imaging and optical inactivation experiments, optical access over S1 and S2 was achieved by cranial window implantation (Margolis et al., 2012). A metal headpost for head fixation was implanted on the skull surrounding the window. One week after window implantation, animals were handled and head-fixed for increasing amounts of time up to 15 minutes to acclimate them for behavior experiments.
Cortical mapping.
In order to select specific whisker regions for imaging and optogenetic inactivation, functional mapping was performed using optical intrinsic signal imaging (ISI) for S1 and a combination of ISI and two-photon calcium imaging for S2. For ISI, the animal was anesthetized with 1.5% isoflurane. The cortical surface was illuminated with a 625-nm LED (Thor Labs). Individual whiskers were stimulated at 10 Hz with a piezo-electric stimulator. Reflectance images were collected through a f = 25mm lens (Navitar) using a CMOS Camera (Hamamatsu; 6.5 um pixel size, 4 x 4 binning, 512 x 512 binned pixels, 30 Hz frame rate). Changes in reflectance during stimulation compared to pre-stimulation were expressed as ΔR/R (150 frame average). Barrel columns were identified as signal minima after averaging intrinsic reflectance signals over 10 trials. A blood vessel map of the cortical area surface was obtained with a 470 nm LED (Thor Labs) for registration and targeting of regions. In situations where ISI maps in S2 were weak, regions were identified and selected for by two-photon calcium imaging of RCamp1.07 signals following whisker stimulation. Whiskers were trimmed to a single row corresponding to the selected imaging or stimulation region.
Behavioral task.
The whisker-based delayed non-match to sample task was performed using a custom written LabVIEW software (National Instruments) to control hardware and a data acquisition interface (USB-6008; National Instruments) for measuring licks, water delivery, and air puff delivery. A water port was attached to a capacitive lick sensor (AT42QT1010; SparkFun) that dispenses 5 to 6 uL of water through a miniature solenoid valve (0127; Buekert). For the rotation stimulus, commercial grade sandpaper (3M; roughness: P100) was mounted along the outside edge of a 6 cm diameter rotor, attached to a stepper motor (Zaber) to deflect the whiskers which was mounted onto a linear stage (Zaber) to place the rotor within whisker reach. Go and no-go trials were presented randomly at 50% probability each, with a maximum of three consecutive presentations of the same trial type. For the final task, the trial structure consisted of the following: 2s baseline period, 1.2 s sample stimulus rotation, 2s delay, 1.2 s test stimulus rotation, 2s report period, and 1s inter-trial period. The rotor was moved into position prior to the sample and test period and out of position following the sample and report period with 0.6s travel time for each movement. Licking during go trials (non-match; sample ≠ test) was regarded as a “hit” trial and the animal received a water reward upon licking. No lick on a go trial was regarded as a “miss.” No lick on no go trials was regarded a “correct reject,” which was unrewarded. Licking on a no go trial (match; sample = test) was considered a “false alarm” during which no reward was given. Typically, each false alarm was punished with an air puff and ~7s timeout before the next trial, but the strength of punishment varied for individual animals depending on its effects on behavioral performance. A metric of animal performance (d’) was calculated for each session and defined as d’ = Z(Hit/(Hit + Miss)) – Z(FA)/(FA + CR)), Where Hit is the number of hits, Miss is the number of misses, CR is the number of correct rejects, and FA is the number of false alarms. Z(p) ϵ [0, 1] is the inverse of the cumulative Gaussian distribution for p = Z(Hit/(Hit + Miss)) or Z(FA)/(FA + CR)).
Animals were water-deprived throughout the experiment. Task training proceeded through four stages. The goal of the first stage was to train the animal to reliably trigger the lick sensor to retrieve water. The second stage involved training animals to the task procedure. In this version of the go no-go task, one of the two go trials conditions and both no-go trial conditions were used. There was no delay period between sample and test period and the rotor remained in contact with the whisker throughout the sample and test period. During the third stage, the remaining go trial condition was introduced and the animals were trained to respond appropriately to all for four possible combinations of stimulus conditions. During the fourth stage, the delay was introduced beginning at 100ms with gradual increasing intervals until 2s was reached. During this portion of training when the delay period was increased, the rotor remained in contact with whisker throughout the delay period. Once animals could reliably perform the task with a 2 s delay, the rotor was then moved out of position during the delay period. For stages 2-4, animals proceeded to the next stage of training once performance reached d’ > 1.75 (80% correct performance) for two consecutive sessions. Behavior sessions were performed twice per day. Imaging or optogenetic inactivation experiments began once animals in the fourth session reached d’ > 1.75 (80% correct performance) for two consecutive sessions completed were imaged in vivo during behavior when. Imaging during passive stimulation conditions occurred immediately following the end of behavioral session.
Optogenetic inactivation.
Experiments were performed with a modified ISI system which enabled a 473 nm laser with built-in digital and analog modulation (Omnicron) to be coupled to a 2D scanning galvo system (Thorlabs), and then focused onto the brain surface through a f = 25mm lens (Navitar). Photo-stimulation consisted of a sinusoidal temporal profile (40 Hz) with a time average power of 2-8mW across ~1 mm2. Since whiskers were trimmed to a single row, the area of inactivation may not completely overlap with all spared S1 barrel columns. To prevent the mice from distinguishing photostimulation trials from control trials using visual cue, a “masking flash” (40, 1 ms pulses at 10 Hz) was delivered using a blue LED near the eyes and sustained throughout the behavior session. For some sessions, only one cortical area was randomly stimulated at a frequency of 25% of trials. For other sessions in which stimulation randomly alternated between S1 and S2, each area was stimulated at a frequency of 15% of trials. For each stimulated trial, the time window of stimulation was randomly selected between the sample, early delay, late delay, and test period. For each animal, >100 photo-stimulation trials were performed per area and per trial period across multiple sessions. Animal performance (d’) was calculated for each photo-stimulation condition and compared to no stimulation using paired t-test. The Bonferroni-Holm method was used to correct for multiple comparisons.
Multi-area two-photon imaging.
Imaging was performed with a custom-built resonant-scanning multi-area two-photon microscope controlled by custom-written Scope software based on a design previously described (Chen et al., 2016). In vivo calcium imaging of RCaMP1.07 imaging was performed using a 40 Mhz 1040 nm fiber laser (Spark Lasers) split into two temporally multiplexed beams positioned over S1 and S2 through a 16x/0.8NA water immersion objective (Nikon) and simultaneously imaged at 32.6 Hz frame rate S1S2 and S2S1 projection neurons were identified in vivo either during the behavioral session using 1040 nm excitation when mCardinal or eGFP were expressed and resolved using 697/75 nm 525/45 nm filters (AVR Optics), respectively. When mTagBFP2 was expressed, labeled cells were identified at the end of the behavior session by 860 nm excitation with a Ti:sapphire laser (Mai Tai HP; Spectra Physics) and resolved with a 458/64 nm filter (AVR Optics).
Quantification and Statistical Analysis
Calcium imaging processing.
All image processing was performed in MATLAB (Mathworks). Two-photon images were first processed for motion correction using a piece-wise rigid motion correction algorithm (Pnevmatikakis and Giovannucci, 2017). Regions of interest corresponding individual active neuron were identified and calcium signals by constrained non-negative matrix factorization (Pnevmatikakis et al., 2016). Deconvolution of calcium signals was performed to obtain a measure of estimated spike rate for individual neurons across the imaging period (Friedrich et al., 2017).
Whisker tracking and analysis.
The whisker field was illuminated with 940-nm infrared LED light and movies were acquired at 500 Hz using a high-speed CMOS camera at 31.6 pixel/mm resolution (CL600x2; Optronis). For analysis, whiskers were automatically traced as described previously (Clack et al., 2012). Four out of 57 imaging sessions were excluded from analysis due to sub-optimal imaging conditions. The angle, curvature, and location of the whisker tip at each time point was extracted for all traced whiskers. The position of the rotor was automatically tracked in the video using custom scripts (MATLAB). Whisker-rotor touch was scored as events in which the tip of at least one whisker came into within <5 pixel radius of the rotor face. Whisker kinematics during the pre-sample period and the late delay period were compared by taking the mean angle or curvature across a 600ms window prior to rotor movement before sample stimulus delivery (pre-sample) or test stimulus delivery (late delay).
For cross-correlation analysis of kinematic parameters to deconvolved calcium signals, time vectors of kinematic parameters were downsampled to the imaging frame rate and analysis was carried out on the first 600 ms (~20 frames) after whisk-rotor touch during the late delay period. Trial-by-trial cross correlation was performed for neuronal activity against curvature change (∣Δκ∣), which was calculated as the absolute difference between the mean curvature for 600ms prior to and following whisk-rotor touch during the late delay period. For whisker angle, the mean whisker angle following whisker-rotor touch was separated into binary vectors representing a range of angles from −90° to 90°, subdivided at 2° intervals. Each sub-vector reflects the likelihood that the whisker angle falls within that given angle range. Cross correlation was performed on each sub-vector and the overall correlation to whisker angle was obtained by taking the maximum R value across the sub-vectors.
Multiple regression analysis.
To assess neuronal response to task stimuli, we performed a multiple regression analysis to model the deconvolved calcium signals as follows:
(1) |
where Y(t) is the estimated firing rate at time t, β0 is the baseline regressor, βsample is the regressor for the sample stimulus xsample (‘anterior’ or ‘posterior’), βtest is the regressor for the test stimulus xtest (‘anterior’ or ‘posterior’), and βcategory is the regressor for the trial category xcategory (‘match’ or ‘non-match’). In cases in which the time course of regressors across the trial period was analyzed, deconvolved calcium signals were first smoothed (±150ms), down-sampled (60ms bins) and z-scored before applying the multiple regression. In cases in which regressors were analyzed with respect to discrete time windows during the trial period, deconvolved calcium signals were down-sampled to each time window and z-transformed before applying the multiple regression. To assess the significance of each regressor, a shuffled population distribution was obtained by deriving coefficients from data with shuffled trial-condition labels for each neuron, repeated 1000 times. A statistical threshold was applied to identify significant coefficient values as defined as P < 0.001 above shuffled conditions.
Choice-related stimulus information.
Cross-validation was used to assess the encoding of cued recall, stimulus, and category information in S1 or S2 as a function of the animal’s choice. Since error trials (miss or false alarm) constituted <15% of tasks trials, information encoding was assessed at a population level as opposed to across individual neurons. We used linear discriminant analysis (LDA) for dimensionality reduction of neuronal population responses. Observations consisted of the average estimated firing rate across a 600ms period prior to the onset of the test stimulus (for cued recall activity) or following the onset of the test stimulus (for stimulus- and category-related activity) for all neurons simultaneously recorded within an imaging field, thus representing the neuronal state space vector at this moment (with each neuron representing one dimension) as ‘snapshot’ of the state space vector trajectory during the given trial.
Observations were divided into test data or training data. Test data included either all n error trials or an equal number of randomly selected correct trials (hit and correct rejection) from an imaging session. Training data included all remaining correct trials not selected as training data. A classifier was trained using LDA in which trials were separated into the N1 and N2 trials for the two chosen trial conditions C1 and C2, respectively (e.g., anterior vs. posterior deflection during the test period for cued recall, anterior vs. posterior deflection during the test period and stimulus information; match vs. non-match for category information). Estimated single-neuron firing rate were arranged in a matrix x with neurons as columns and trials as rows. The LDA procedure seeks to find a projection vector w such that the projections of the observations onto this axis, collected in the vector:
(2) |
are best separated for the two chosen trial conditions. Maximal separation is defined as the maximal difference of the mean vectors and for C1 and C2, respectively, normalized by the within-class scatter. The solution, known as Fisher’s linear discriminant (Fisher, 1936), is given by
(3) |
where is the within-class covariance given by
(4) |
The bias is calculated as
(5) |
Intuitively, this procedure finds a hyperplane in the state space (orthonormal to the projection vector w and encompassing w0) providing best separation given the Fisher’s criterion. For cross-validation, activity data from the remaining test trials were projected onto the same hyperplane as the classifier. Receiver operating characteristic (ROC) analysis was used to assess how well the classifier predicted trial conditions C1 and C2 in the test data. This process was repeated 1000 times and the average was taken as the performance for each imaging plane. Classifier performance between correct and error trials was compared using independent t-test. The Bonferroni-Holm method was used to correct for multiple comparisons.
Cued recall and category information during passive stimulation.
To compare encoding of cued recall and category information between task and passive stimulation conditions, we subsampled the task trials (~300trials) to match the fewer passive trials (~50trials, sessions with less than 10 passive trials were excluded) for each session. Passive trials were collected after the mouse stopped performing the task. Since relatively few passive trials (~50) were collected for each neuron compared to task trials (~300), task trials were subsampled. Multiple regression analysis was performed after randomly selected a number of active trials equal to the number of passive trials for each neuron. In addition, a population null distribution was obtained by performing multiple regression analysis on shuffled condition labels for each neuron. Differences in regressors between task versus passive conditions was compared using paired t-test. The significance of regressors during passive conditions was determined by comparing passive conditions to regressors from shuffled conditions and assessed using paired t-test. Differences in strength of task modulation between S1 and S2 were assessed using independent t-test. The Bonferroni-Holm method was used to correct for multiple comparisons.
Context modulation.
A modulation index (MI) was calculated to assess how firing rates differed between the sample and test period as a function of a neuron’s tuning. The preferred tuning of a neuron with respect to anterior or posterior deflection of the whisker was determined by computing the average βtest across a 600ms period following test stimulus onset where βtest > 0 reflected a neuron tuned to anterior deflections and βtest < 0 reflected a neuron tuned to posterior deflections. Modulation index against the neuron’s preferred direction with respect to match trials was calculated as MImatch = (Fmatch – Fsample)/(Fmatch + Fsample) where Fsample was the average firing rate over the 600 ms period following sample onset from trials in which the preferred stimulus was presented and where Fmatch was the average firing rate over the 600 ms period following test onset from match trials in which the preferred stimulus was presented. MImatch > 0 was considered ‘match enhancement’ whereas MImatch < 0 was considered ‘match suppression’. Modulation index against the neuron’s preferred direction with respect to match trials was calculated as MInon-match = (Fnon-match – Fsample)/(Fnon-match + Fsample) where Fsample was the average firing rate over the 600 ms period following sample onset from trials in which the preferred stimulus was presented and where Fmatch was the average firing rate over the 600 ms period following test onset from non-match trials in which the preferred stimulus was presented. MInon-match > 0 was considered ‘non-match enhancement’ whereas MInon-match < 0 was considered ‘non-match suppression’. Similar modulation indexes against the non-preferred direction were also calculated with respect to match and non-match trials. Modulation indexes across different match and non-match neurons in S1 and S2 were compared using independent t-test.
Network analysis.
Trial-by-trial correlated variability in neuronal activity (R2) was calculated for each pair of neurons. For the sample period, the mean estimated firing rate over a 1 s period following sample onset was used. For the test period, the mean estimated firing rate over a 1 s period following test onset was used. For each neuronal pair, correlated variability was separately calculated for each of the four trial conditions. Neuronal pairs were grouped based on similar response properties according to whether they share significant βsample , βtest, or βcategory of the same sign (ie. pairs of category neurons would either be both +βcategory or both −βcategory). A population level measure of correlated variability was obtained by taking the mean R2 across all trial conditions for all simultaneously imaged pairs within a recording session. Correlated variability of between neuronal pairs of different response properties were compared using paired t-test. The Bonferroni-Holm method was used to correct for multiple comparisons.
To assess the robustness of populating coding across varying neuronal population sizes, LDA followed by (ROC) analysis was used to assess the population-level discriminability. Observations consisted of the average estimated firing rate across a 600ms period prior to the onset of the test stimulus (for cued recall activity) or following the onset of the test stimulus (for category activity). For each imaging session, population size was varied by randomly excluding fractions of neurons at 10% intervals and computing the discriminability for the remaining neuron in the population. This process was repeated 1000 times and the average discriminability was used to reflect the discriminability at a given population size. Relative discriminability was determined by normalizing discriminability to that determined from including all possible simultaneously imaged neurons.
Data and Code Availability
Data and code used in this study are available upon request.
Supplementary Material
REAGENT or RESOURCE |
SOURCE | IDENTIFIER |
---|---|---|
Bacterial and Virus Strains | ||
AAV-PHP.eb-syn-RCaMP1.07 | (Bethge et al., 2017) | |
retroAAV-syn-Flpo | (Xue et al., 2014) | Addgene Cat #60663 |
AAV2.1-Ef1α-dio-eGFP | (Saunders et al., 2012) | Addgene Cat #37084 |
retroAAV-syn-Cre | James M. Wilson | Addgene Cat #10553 |
AAV2.1-Ef1α-fio-mCardinalNLS | This paper | |
AAV2.1-Ef1α-fio-mTagBFP2H2B | This paper | |
Experimental Models: Organisms/Strains | ||
C57BL/6J mice | The Jackson Laboratory | JAX:000664 |
VGAT-ChR2-EYFP mice |
The Jackson Laboratory | JAX:014548 |
Software and Algorithms | ||
Motion Correction | (Pnevmatikakis and Giovannucci, 2017) | https://github.com/flatironinstitute/NoRMCorre |
Calcium Source Extraction | (Pnevmatikakis et al., 2016) | https://github.com/flatironinstitute/CaImAn-MATLAB |
Calcium Deconvolution | (Friedrich et al., 2017) | https://github.com/j-friedrich/OASIS |
Whisker Tracking | (Clack et al., 2012) | https://www.janelia.org/open-science/whisk-whisker-tracking |
MATLAB | Mathworks | https://www.mathworks.com/products/matlab.html |
LabVIEW | National Instruments | https://www.ni.com/en-us/shop/labview.html |
Highlights.
Mouse S1 and S2 encode overlapping information during a tactile working memory task
Recall responses of previous stimuli are more prevalent in S2 and are relayed to S1
Category information in S1, but not S2, is necessary for task performance
Network properties of S2 allow task information to persist across behavior states
Acknowledgements
We thank M. Valley and N. Li for guidance in optogenetic inactivation experiments and C. Harvey, M. Howe, S. Kira, B. Scott for comments on the manuscript. This work was supported by grants from a NARSAD Young Investigator Grant from the Brain & Behavior Research Foundation, the Richard and Susan Smith Family Foundation, Elizabeth and Stuart Pratt Career Development Award, the Whitehall Foundation, National Science Foundation Neuronex Neurotechnology Hub (NEMONIC #1707287), National Institutes of Health BRAIN Initiative Award (R01NS109965), National Institutes of Health New Innovator Award (DP2NS111134), National Institutes of Health Ruth L. Kirschstein Predoctoral Individual National Research Service Award (1F31NS111896) to C.C., and Boston University Center for Systems Neuroscience Post-Doctoral Fellowship to J.N. and E.L.
Footnotes
Declaration of Interests The authors declare no competing interests.
Publisher's Disclaimer: This is a PDF file of an unedited manuscript that has been accepted for publication. As a service to our customers we are providing this early version of the manuscript. The manuscript will undergo copyediting, typesetting, and review of the resulting proof before it is published in its final form. Please note that during the production process errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain.
REFERENCES
- Ahrlund-Richter S, Xuan Y, van Lunteren JA, Kim H, Ortiz C, Pollak Dorocic I, Meletis K, and Carlen M (2019). A whole-brain atlas of monosynaptic input targeting four different cell types in the medial prefrontal cortex of the mouse. Nat Neurosci 22, 657–668. [DOI] [PubMed] [Google Scholar]
- Averbeck BB, Latham PE, and Pouget A (2006). Neural correlations, population coding and computation. Nature reviews Neuroscience 7, 358–366. [DOI] [PubMed] [Google Scholar]
- Bale MR, and Petersen RS (2009). Transformation in the neural code for whisker deflection direction along the lemniscal pathway. J Neurophysiol 102, 2771–2780. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Bethge P, Carta S, Lorenzo DA, Egolf L, Goniotaki D, Madisen L, Voigt FF, Chen JL, Schneider B, Ohkura M et al. (2017). An R-CaMP1.07 reporter mouse for cell-type-specific expression of a sensitive red fluorescent calcium indicator. PLoS One 12, e0179460. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Chen JL, Carta S, Soldado-Magraner J, Schneider BL, and Helmchen F (2013). Behaviour-dependent recruitment of long-range projection neurons in somatosensory cortex. Nature 499, 336–340. [DOI] [PubMed] [Google Scholar]
- Chen JL, Margolis DJ, Stankov A, Sumanovski LT, Schneider BL, and Helmchen F (2015). Pathway-specific reorganization of projection neurons in somatosensory cortex during learning. Nature neuroscience. [DOI] [PubMed]
- Chen JL, Voigt FF, Javadzadeh M, Krueppel R, and Helmchen F (2016). Long-Range population dynamics of anatomically defined neocortical networks. Elife 5, e14679. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Cheung J, Maire P, Kim J, Sy J, and Hires SA (2019). The Sensorimotor Basis of Whisker-Guided Anteroposterior Object Localization in Head-Fixed Mice. Curr Biol 29, 3029–3040 e3024. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Clack NG, O'Connor DH, Huber D, Petreanu L, Hires A, Peron S, Svoboda K, and Myers EW (2012). Automated tracking of whiskers in videos of head fixed rodents. PLoS Comput Biol 8, e1002591. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Cohen MR, and Kohn A (2011). Measuring and interpreting neuronal correlations. Nature neuroscience 14, 811–819. [DOI] [PMC free article] [PubMed] [Google Scholar]
- DiCarlo JJ, Zoccolan D, and Rust NC (2012). How does the brain solve visual object recognition? Neuron 73, 415–434. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Engel TA, and Wang XJ (2011). Same or different? A neural circuit mechanism of similarity-based pattern match decision making. J Neurosci 31, 6982–6996. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Felleman DJ, and Van Essen DC (1991). Distributed hierarchical processing in the primate cerebral cortex. Cereb Cortex 1, 1–47. [DOI] [PubMed] [Google Scholar]
- Fisher R (1936). The use of multiple measurements in taxonomic problems. Annals Eugen 7, 179–188. [Google Scholar]
- Friedrich J, Zhou P, and Paninski L (2017). Fast online deconvolution of calcium imaging data. PLoS Comput Biol 13, e1005423. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Goldin MA, Harrell ER, Estebanez L, and Shulz DE (2018). Rich spatio-temporal stimulus dynamics unveil sensory specialization in cortical area S2. Nat Commun 9, 4053. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Hernandez A, Nacher V, Luna R, Zainos A, Lemus L, Alvarez M, Vazquez Y, Camarillo L, and Romo R (2010). Decoding a perceptual decision process across cortex. Neuron 66, 300–314. [DOI] [PubMed] [Google Scholar]
- Jun JJ, Steinmetz NA, Siegle JH, Denman DJ, Bauza M, Barbarits B, Lee AK, Anastassiou CA, Andrei A, Aydin C et al. (2017). Fully integrated silicon probes for high-density recording of neural activity. Nature 551, 232–236. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Kealy J, and Commins S (2011). The rat perirhinal cortex: A review of anatomy, physiology, plasticity, and function. Prog Neurobiol 93, 522–548. [DOI] [PubMed] [Google Scholar]
- Khan AG, and Hofer SB (2018). Contextual signals in visual cortex. Curr Opin Neurobiol 52, 131–138. [DOI] [PubMed] [Google Scholar]
- Kitada R (2016). The Brain Network for Haptic Object Recogniton In Pervasive Haptics: Science, Design, and Application, Kajimoto H, Saga S, and Konyo M, eds. (Tokyo: Springer Japan; ), pp. 21–37. [Google Scholar]
- Koay SA, Thiberge SY, Brody CD, and Tank DW (2019). Neural Correlates of Cognition in Primary Visual versus Neighboring Posterior Cortices during Visual Evidence-Accumulation-based Navigation. bioRxiv, 568766. [Google Scholar]
- Kwon SE, Yang H, Minamisawa G, and O'Connor DH (2016). Sensory and decision-related activity propagate in a cortical feedback loop during touch perception. Nat Neurosci 19, 1243–1249. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Lee CR, Yonk AJ, Wiskerke J, Paradiso KG, Tepper JM, and Margolis DJ (2019). Opposing Influence of Sensory and Motor Cortical Input on Striatal Circuitry and Choice Behavior. Curr Biol 29, 1313–1323 e1315. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Machens CK, Romo R, and Brody CD (2005). Flexible control of mutual inhibition: a neural model of two-interval discrimination. Science 307, 1121–1124. [DOI] [PubMed] [Google Scholar]
- Margolis DJ, Lutcke H, Schulz K, Haiss F, Weber B, Kugler S, Hasan MT, and Helmchen F (2012). Reorganization of cortical population activity imaged throughout long-term sensory deprivation. Nat Neurosci 15, 1539–1546. [DOI] [PubMed] [Google Scholar]
- Merrikhi Y, Clark K, Albarran E, Parsa M, Zirnsak M, Moore T, and Noudoost B (2017). Spatial working memory alters the efficacy of input to visual cortex. Nat Commun 8, 15041. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Miller EK, Li L, and Desimone R (1991). A neural mechanism for working and recognition memory in inferior temporal cortex. Science 254, 1377–1379. [DOI] [PubMed] [Google Scholar]
- Minamisawa G, Kwon SE, Chevee M, Brown SP, and O'Connor DH (2018). A Non-canonical Feedback Circuit for Rapid Interactions between Somatosensory Cortices. Cell Rep 23, 2718–2731 e2716. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Minderer M, Brown KD, and Harvey CD (2019). The Spatial Structure of Neural Encoding in Mouse Posterior Cortex during Navigation. Neuron. [DOI] [PMC free article] [PubMed]
- Mongillo G, Barak O, and Tsodyks M (2008). Synaptic theory of working memory. Science 319, 1543–1546. [DOI] [PubMed] [Google Scholar]
- Narumi T, Nakamura S, Takashima I, Kakei S, Tsutsui K, and Iijima T (2007). Impairment of the discrimination of the direction of single-whisker stimulation induced by the lemniscal pathway lesion. Neurosci Res 57, 579–586. [DOI] [PubMed] [Google Scholar]
- Ni J, and Chen JL (2017). Long-range cortical dynamics: a perspective from the mouse sensorimotor whisker system. Eur J Neurosci 46, 2315–2324. [DOI] [PubMed] [Google Scholar]
- O’Connor DH, Clack NG, Huber D, Komiyama T, Myers EW, and Svoboda K (2010). Vibrissa-based object localization in head-fixed mice. J Neurosci 30, 1947–1967. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Ohkura M, Sasaki T, Kobayashi C, Ikegaya Y, and Nakai J (2012). An improved genetically encoded red fluorescent Ca2+ indicator for detecting optically evoked action potentials. PLoS One 7, e39933. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Pnevmatikakis EA, and Giovannucci A (2017). NoRMCorre: An online algorithm for piecewise rigid motion correction of calcium imaging data. J Neurosci Methods 291, 83–94. [DOI] [PubMed] [Google Scholar]
- Pnevmatikakis EA, Soudry D, Gao Y, Machado TA, Merel J, Pfau D, Reardon T, Mu Y, Lacefield C, Yang W, et al. (2016). Simultaneous Denoising, Deconvolution, and Demixing of Calcium Imaging Data. Neuron 89, 285–299. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Romo R, and de Lafuente V (2013). Conversion of sensory signals into perceptual decisions. Progress in neurobiology 103, 41–75. [DOI] [PubMed] [Google Scholar]
- Romo R, Lemus L, and de Lafuente V (2012). Sense, memory, and decision-making in the somatosensory cortical network. Current Opinion in Neurobiology 22, 914–919. [DOI] [PubMed] [Google Scholar]
- Rumelhart DE, and McClelland JL (1987). Parallel Distributed Processing: Explorations in the Microstructure of Cognition Foundations. Volume 1 (MIT Press; ). [Google Scholar]
- Runyan CA, Piasini E, Panzeri S, and Harvey CD (2017). Distinct timescales of population coding across cortex. Nature 548, 92–96. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Saunders A, Johnson CA, and Sabatini BL (2012). Novel recombinant adeno-associated viruses for Cre activated and inactivated transgene expression in neurons. Front Neural Circuits 6, 47. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Siegel M, Buschman TJ, and Miller EK (2015). Cortical information flow during flexible sensorimotor decisions. Science 348, 1352–1355. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Sofroniew NJ, Flickinger D, King J, and Svoboda K (2016). A large field of view two-photon mesoscope with subcellular resolution for in vivo imaging. Elife 5, e14472. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Steinmetz N, Zatka-Haas P, Carandini M, and Harris K (2018). Distributed correlates of visually-guided behavior across the mouse brain. bioRxiv, 474437. [Google Scholar]
- Tervo DG, Hwang BY, Viswanathan S, Gaj T, Lavzin M, Ritola KD, Lindo S, Michael S, Kuleshova E, Ojala D, et al. (2016). A Designer AAV Variant Permits Efficient Retrograde Access to Projection Neurons. Neuron 92, 372–382. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Xue M, Atallah BV, and Scanziani M (2014). Equalizing excitation-inhibition ratios across visual cortical neurons. Nature 511, 596–600. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Yamashita T, and Petersen C (2016). Target-specific membrane potential dynamics of neocortical projection neurons during goal-directed behavior. Elife 5. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Yang H, Kwon SE, Severson KS, and O'Connor DH (2016). Origins of choice-related activity in mouse somatosensory cortex. Nat Neurosci 19, 127–134. [DOI] [PMC free article] [PubMed] [Google Scholar]
- Zhao S, Ting JT, Atallah HE, Qiu L, Tan J, Gloss B, Augustine GJ, Deisseroth K, Luo M, Graybiel AM, et al. (2011). Cell type-specific channelrhodopsin-2 transgenic mice for optogenetic dissection of neural circuitry function. Nat Methods 8, 745–752. [DOI] [PMC free article] [PubMed] [Google Scholar]
Associated Data
This section collects any data citations, data availability statements, or supplementary materials included in this article.
Supplementary Materials
Data Availability Statement
Data and code used in this study are available upon request.