Table 1.
Presence of an Open Reading Frame (ORF) for SCNN1D in Currently Available Rodent Genomes.
| Rodent Family | Species | Genome Assembly | SCNN1D ORF | Comments | |
|---|---|---|---|---|---|
| Gliridae | Muscardinus avellanarius | MusAve_v1_BIUU | Yes | ||
| Glis glis | GliGli_v1_BIUU | Yes | |||
| Graphiurus murinus | GraMur_v1_BIUU | Yes | |||
| Sciuridae | Xerus inauris a | XerIna_v1_BIUU | No | ||
| Ictidomys tridecemlineatus | SpeTri2.0 | No | Unsequenced parts of exon 13 | ||
| Cynomys gunnisoni | ASM1131664v1 | No | |||
| Spermophilus dauricus | ASM240643v1 | No | |||
| Urocitellus parryii | ASM342692v1 | No | |||
| Marmota himalayana | ASM528016v1 | No | |||
| Marmota marmota | marMar | No | |||
| Marmota monax | MONAX5 | No | |||
| Aplodontiidae | Aplodontia rufa | AplRuf_v1_BIUU | Yes | ||
| Pedetidae | Pedetes capensis | PedCap_v1_BIUU | Yes | Exon 13 information is retrieved from two different sequencing results | |
| Anomaluridae | No genomes available | ||||
| Zenkerellidae | No genomes available | ||||
| Castoridae | Castor canadensis | C.can genome v1.0 | Yes | Invasive species | |
| Heteromyidae | Dipodomys ordii | Dord_2.0 | No | ||
| Geomyidae | No genomes available | ||||
| Dipodidae | Jaculus jaculus | JacJac1.0 | No | ||
| Allactaga bullata b | AllBul_v1_BIUU | No | |||
| Zapodidae | Zapus hudsonius | ZapHud_v1_BIUU | Yes | ||
| Sminthidae | No genomes available | ||||
| Platacanthomyidae | No genomes available | ||||
| Spalacidae | Nannospalax galil c | S.galili_v1.0 | Yes | ||
| Calomyscidae | No genomes available | ||||
| Nesomyidae | Cricetomys gambianus | CriGam_v1_BIUU | No | Invasive species | |
| Cricetidae | Microtus ochrogaster | MicOch1.0 | No | ||
| Cricetulus barabensi griseus d | CriGri_1.0 | No | |||
| Peromyscus maniculatus | Pman_1.0 | No | Invasive species | ||
| Peromyscus leucopus | UCI_PerLeu_2.1 | No | |||
| Mesocricetus auratus | MesAur1.0 | No | |||
| Muridae | Rattus norvegicus | Rnor_6.0 | No | Invasive species | |
| Rattus rattus | Rrattus_CSIRO_v1 | No | Invasive species | ||
| Grammomys dolichurus surdaster e | NIH_TR_1.0 | No | |||
| Mus musculus | GRCm39 | No | Invasive species | ||
| Mus caroli | CAROLI_EIJ_v1.1 | No | |||
| Mastomys coucha | UCSF_Mcou_1 | No | |||
| Mus pahari | PAHARI_EIJ_v1.1 | No | |||
| Ctenodactylidae | Ctenodactylus gundi | CteGun_v1_BIUU | Yes | ||
| Diatomyidae | No genomes available | ||||
| Hystricidae | Hystrix cristata | HysCri_v1_BIUU | Yes | ||
| Bathyergidae | Fukomys damarensis f | DMR_v1.0 | Yes | Exon 6 yet unsequenced, remaining sequence has normal reading frame | |
| Heterocephalidae | Heterocephalus glaber | HetGla_female_1.0 | Yes | ||
| Petromuridae | Petromus typicus | PetTyp_v1_BIUU | Yes | ||
| Thryonomyidae | Thryonomys swinderianus | ThrSwi_v1_BIUU | Yes | ||
| Erethizontidae | Erethizon dorsatus | GSC_porc_1.0 | Yes | ||
| Caviidae | Dolichotis patagonum | DolPat_v1_BIUU | No | Internal stop codons | |
| Hydrochoerus hydrochaeris | HydHyd_v1_BIUU | Yes | |||
| Cavia porcellus | Cavpor3.0 | Yes | Invasive species | ||
| Cavia tschudii | CavTsc_v1_BIUU | Yes | |||
| Dasyproctidae | Dasyprocta punctata | DasPun_v1_BIUU | Yes | ||
| Cuniculidae | Cuniculus paca | CunPac_v1_BIUU | Yes | ||
| Chinchillidae | Chinchilla lanigera | ChiLan1.0 | Yes | ||
| Dinomyidae | Dinomys branickii | DinBra_v1_BIUU | Yes | ||
| Abrocomidae | No genomes available | Yes | |||
| Echimyidae | Capromys pilorides | CapPil_v1_BIUU | Yes | ||
| Myocastor coypus | MyoCoy_v1_BIUU | Yes | Invasive species | ||
| Octodontidae | Octodon degus | OctDeg1.0 | Yes | ||
| Ctenomyidae | Ctenomys sociabilis | CteSoc_v1_BIUU | Yes |
Note.—Families that include species with intact SCNN1D are color coded in blue. Light blue color indicates SCNN1D without exon fusion, dark blue color indicates SCNN1D with exon fusion. Magenta labels families that include species without functional SCNN1D (pseudogene) and red labels families in which SCNN1D is completely absent. Families of which genetic information is absent are labeled in gray.
Xerus inauris is assigned to a subgenus, Geosciurus inauris.
Allactata bullata is assigned to a subgenus, Orientallactaga bullata.
For analysis of species distribution, the GBIF species Spalax ehrenbergi (a now outdated species complex) was used.
Observation data are also recorded as a separate (now obsolete) species C. griseus in GBIF.
Observation data are also recorded as obsolete synonym Thamnomys surdaster surdaster in GBIF.
Fukomys damarensis was previously named Cryptomys damarensis as recorded in GBIF (Kock et al. 2006). The species marked as invasive were excluded from the geographical and aridity analyses presented in figure 9.