A new karyotype for Rhipidomys (Rodentia, Cricetidae) from Southeastern Brazil

Abstract Abstract

In this work we present a new karyotype for Rhipidomys Tschudi, 1845 (Cricetidae, Rodentia) from Brazil. Our chromosome analyses included GTG- and CBG-banding patterns, the localization of the nucleolus organizer regions after silver staining (Ag-NORs) and fluorescence in situ hybridization (FISH) with a telomere probe. The new karyotype is composed of 44 chromosomes and has a fundamental number (number of autosomal arms) of 48. Most Rhipidomys species already karyotyped presented similar complements with 2n=44, but their fundamental numbers varied from FN=46 to 80, a variation that has been mainly attributed to pericentric inversions. The comparison of this new karyotype to those of other Rhipidomys already reported allowed us to conclude that it is a distinctive chromosome complement, which can be of great use as a tool for the very complicated taxonomic identification in this genus.

Introduction

The Neotropical rodent Rhipidomys Tschudi, 1845 (family Cricetidae) is an arboreal genus belonging to the largely diverse subfamily Sigmodontinae, whose phylogenetic relationships are difficult to resolve, resulting in taxonomic uncertainties at every level, from species to tribes (Musser and Carleton 2005).

Rhipidomys is widely distributed and has been reported from Panama to southeastern Brazil and northern Argentina. The distribution of many species remains uncertain and there are several reports of undescribed species (Tribe 1996, Musser and Carleton 2005). Besides the eighteen species recognized by Musser and Carleton (2005), three additional species have been identified: Rhipidomys ipukensis Rocha et al., 2011, Rhipidomys tribei Costa et al., 2011 and Rhipidomys itoan Costa et al., 2011, and a further unnamed clade from central and eastern Brazil has been recognized (Costa et al. 2011, Rocha et al. 2011). Twelve of the recognized Rhipidomys species have been found in Brazil: Rhipidomys macconnelli De Winton, 1900, Rhipidomys leucodactylus Tschudi, 1845, Rhipidomys wetzeli Gardner, 1989, Rhipidomys nitela Thomas, 1901, Rhipidomys macrurus Gervais, 1855, Rhipidomys gardneri Patton et al., 2000, Rhipidomys emiliae J.A. Allen, 1916, Rhipidomys mastacalis Lund, 1840, Rhipidomys cariri Tribe, 2005, Rhipidomys ipukensis, Rhipidomys tribei and Rhipidomys itoan, and an additional undescribed species has been reported as Rhipidomys sp 2 (Tribe 1996, Musser and Carleton 2005, Bonvicino et al. 2008, Costa et al. 2011).

Eleven species of Rhipidomys have already been karyotyped and, with the exception of Rhipidomys nitela (2n=48) and Rhipidomys prope nitela (2n=50), all presented karyotypes with 2n=44 chromosomes. In contrast with the conservation of diploid numbers, the karyotypes of Rhipidomys showed fundamental numbers ranging from FN=46 to 80, a variation mainly attributed to pericentric inversions. The available karyotypical data for Rhipidomys are summarized in Table 1. Most cytogenetic studies on this genus were performed with conventionally stained karyotypes and in less than half the GTG- CBG- or AgNOR-banding patterns were also included.

Table 1. Summary of the available chromosome data for Rhipidomys.¹ As Rhipidomys sclateri, which was later considered a synonym of Rhipidomys leucodactylus (Musser and Carleton 2005). ² Identified by Tribe (1996), originally reported as Rhipidomys sp. ³ As Rhipidomys cearanus (Zanchin et al. 1992), later considered as a synonym of Rhipidomys mastacalis (Musser and Carleton 2005).

Group	Species	2n/FN	Locality	Reference
Rhipidomys leucodactylus	Rhipidomys leucodactylus	44/ 46	Rio Juruá (AM)	Patton et al. 2000
		44/ 48	Rio Jamari (RO), Caldas Novas, Serra da Mesa (GO)	Zanchin et al. 1992, Andrades-Miranda et al. 2002
		44/ 481	Cueva del Agua (Venezuela)	Aguilera et al. 1994
		44/ 52	Serra da Mesa (GO), Caxiuanã (PA)	Andrades-Miranda et al. 2002
	Rhipidomus sp.	44/ 48	Berilo (MG)	This work
	Rhipidomys latimanus	44/ 48	Peñas Blancas (Colômbia)	Gardner and Patton 1976
	Rhipidomys macrurus	44/ 48	Águas Emendadas (DF), Chapada Diamantina (BA)	Svartman and Almeida 1993, Pereira and Geise 2007
		44/ 49	Granja do Ipê (DF)	Svartman and Almeida 1993
	Rhipidomys prope macrurus	44/ 492	Casa Grande (SP)	Svartman and Almeida 1993
		44/ 502	Monte Verde (ES)	Zanchin et al. 1992
		44/ 50	Garrafão (RJ)	Tribe 1996
		44/ 51	Mocambinho (MG)	Tribe 1996
	Rhipidomys gardneri	44/ 50	Rio Juruá (AC)	Patton et al. 2000
	Rhipidomys macconnelli	44/ 50	La Escalera (Venezuela)	Aguilera et al. 1994
	Rhipidomys cf. mastacalis	44/ 52	Vila Rica (MT), Aripuanã (MT)	Silva and Yonenaga-Yassuda 1999
	Rhipidomys itoan	44/ 48,49,50	SP and RJ	Costa et al. 2011
Rhipidomys mastacalis	Rhipidomys mastacalis	44/ 74	Lagoa Santa (MG), Unacau (BA), Casimiro de Abreu (RJ), Reserva Biológica Duas Bocas (ES)	Zanchin et al. 1992, Paresque et al. 1994, Tribe 1996
		44/ 76	Serra da Mesa (GO)	Andrades-Miranda et al. 2002
		44/ 80	Serra da Mesa (GO)	Andrades-Miranda et al. 2002
		344/ high	Serra dos Cavalos (PE)	Zanchin et al. 1992
Hybrid	Rhipidomys with high FN x Rhipidomys with low FN	44/ 61	M. Chapéu (BA)	Silva and Yonenaga-Yassuda 1999
Rhipidomys nitela	Rhipidomys nitela	44/ 71	San Ignacio, (Venezuela)	Tribe 1996
		48/ 67	La Trinité (French Guiana)	Volobouev and Catzeflis 2000
		48/ 68	Surumurú (RR)	Andrades-Miranda et al. 2002
	Rhipidomys prope nitela	50/ 71,72	Manaus (AM)	Silva and Yonenaga-Yassuda 1999

In this work, we present a new karyotype for Rhipidomys. Our analyses included GTG- and CBG-banding patterns, the silver staining location of the nucleolus organizer regions (Ag-NORs) and fluorescence in situ hybridization (FISH) with a telomere probe.

Material and methods

We analyzed five specimens (two males and three females) of Rhipidomys sp. captured in 2004 in a dry land region in the margins of the Jequitinhonha river, in Berilo, state of Minas Gerais, Brazil (16°57'06"S, 42°27'56"W; Fig. 1) under the license 129/04-NUFAS/MG from the Instituto Brasileiro para o Meio Ambiente - IBAMA. The skins and skulls were deposited at the Museu de Ciências Naturais da Pontifícia Universidade Católica de Minas Gerais, in Belo Horizonte, Minas Gerais State, Brazil, under the numbers: MCNM 1643, 1644 (two males) and MCNM 1646, 1647, 1648 (three females).

Figure 1.

Map showing the collection locality of the Rhipidomys sp. analyzed.

Chromosome preparations were obtained from bone marrow according to the technique described by Ford and Hamerton (1956). GTG- and CBG-banding patterns were obtained following Seabright (1971) and Sumner (1972), respectively, and silver staining of the nucleolus organizer regions (Ag-NORs) was performed according to Howell and Black (1980). FISH with the (T₂AG₃)_n telomere sequence was performed with the Telomere PNA Kit/FITC (Dako Cytomation) according to the manufacturer’s instructions.

The chromosomes were arranged based on the karyotype described for specimens of Rhipidomys sp. by Svartman and Almeida (1993), which were later identified as Rhipidomys macrurus (Tribe 1996).

Results

The two males and three females of Rhipidomys sp. analyzed presented a diploid number of 2n=44 chromosomes and a fundamental number FN=48. This karyotype was composed of 21 pairs of autosomes: 18 pairs of acrocentrics with gradual variation in size from large to small (pairs 1 to 9 and 11 to 19), one pair of medium subtelocentrics (pair 10), one pair of small metacentrics (pair 20) and one pair of small submetacentrics (pair 21). The X chromosome was a large submetacentric with polymorphism in the size of its short arms and the Y chromosome was a very small acrocentric. Autosomal pairs 1, 10, 19, 20 and 21, the X and the Y chromosomes were the only identifiable chromosomes after conventional Giemsa staining (Fig. 2).

Figure 2.

Karyotype of Rhipidomys sp. male (2n=44, FN=48) after conventional Giemsa staining. In the inset, the sex chromosomes of a female. Note the variation in the size of the short arms of the X chromosomes. Bar = 10 µm.

After GTG-banding all the autosomes and the sex chromosomes could be identified. The X chromosome presented the two typical mammalian dark GTG-bands in its long arm and no bands were observed on its short arms. The Y chromosome had an indistinct staining (Fig. 3).

Figure 3.

GTG-banded karyotype of Rhipidomys sp. male (2n=44, FN=48). In the inset, the sex chromosomes of a female. Bar = 10 µm.

CBG-banding revealed the presence of constitutive heterochromatin in the pericentromeric region of most autosomal pairs. The short arm of the X chromosome was entirely heterochromatic with a stronger stained pericentromeric region and the Y chromosome displayed a small pericentromeric C-band (Fig. 4).

Figure 4.

CBG-banding in a metaphase of Rhipidomys sp. female (2n=44, FN=48). Bar = 10 µm.

Silver staining revealed one to five nucleolus organizer regions (Ag-NORs) per cell. The Ag-NORs were located on the short arms of medium/small acrocentric autosomes. From the 151 analyzed cells, the majority (57) showed four Ag-NORs. Associations between NORs were frequent (Table 2, Fig. 5). FISH with the telomere sequences revealed signals only at the telomere regions of all chromosomes (Fig. 6).

Table 2.

Number of Ag-NORs per cell in Rhipidomys sp. (2n=44, FN=48).

		Number of chromosomes with Ag-NORs
		1	2	3	4	5	Total
Number of cells	MCNM 1643 (Male)	4	5	10	10	1	30
	MCNM 1644 (Male)	2	6	6	13	3	30
	MCNM 1646 (Female)	5	4	10	7	4	30
	MCNM 1647 (Female)	1	3	16	11	0	31
	MCNM 1648 (Female)	1	0	12	16	1	29
	Total	13	18	54	57	9	151

Figure 5.

Silver staining of the nucleolus organizer regions (Ag-NORs) in the karyotype of Rhipidomys sp. female (2n=44, FN=48). Bar = 10 µm.

Figure 6.

Metaphase of Rhipidomys sp. female (2n=44, FN=48) after FISH with a telomere probe. Bar = 10 µm.

Discussion

Besides the karyotype of Rhipidomys sp. presented herein, four other species of Rhipidomys with the karyotype formula of 2n=44 and FN=48 have been described: Rhipidomys latimanus Tomes, 1860 from Colombia, for which no karyotype picture has been presented (Gardner and Patton 1976); Rhipidomys macrurus from the Brazilian states of Goiás and Bahia (Svartman and Almeida 1993, Pereira and Geise 2007), Rhipidomys leucodactylus collected in the Brazilian states of Rondônia and Goiás (Zanchin et al. 1992, Andrades-Miranda et al. 2002) and in Venezuela (Aguilera et al. 1994), and Rhipidomys itoan from the states of São Paulo and Rio de Janeiro. The animals from Venezuela were originally identified as Rhipidomys sclateri (Aguilera et al. 1994), which was later recognized as a synonym of Rhipidomys leucodactylus (Musser and Carleton 2005).

The karyotype of Rhipidomys sp. studied herein differed from that of Rhipidomys macrurus (2n=44, FN=48) from Goiás (Svartman and Almeida 1993) in the morphologies of pair 10 and of the smallest autosome pair. Pair 10 was subtelocentric in Rhipidomys sp. and acrocentric in Rhipidomys macrurus, whereas the smallest autosome pair was acrocentric in Rhipidomys sp. and metacentric in Rhipidomys macrurus. The X chromosome was submetacentric in Rhipidomys cariri and acrocentric in Rhipidomys macrurus. The CBG-banding patterns also differed between both species, as only a very small amount of constitutive heterochromatin was detected in Rhipidomys macrurus (Svartman and Almeida 1993), compared to the pericentromeric C-bands found in most autosomes of Rhipidomys sp. (Fig. 3). Silver staining revealed the presence of 1 to 5 chromosomes with nucleolus organizer regions (Ag-NORs) in Rhipidomys sp. All the NOR-bearing chromosomes were medium acrocentrics similar to the three pairs that presented Ag-NORs in Rhipidomys macrurus (Svartman and Almeida 1993).

GTG-banding patterns have not been described for Rhipidomys leucodactylus, also with 2n=44 and FN=48. From the three biarmed autosomes found in the karyotype of this species, two are comparable in size to the medium acrocentric pair 15 and the third is the smallest autosome pair (Zanchin et al. 1992, Aguilera et al. 1994, Andrades-Miranda et al. 2002), whereas in Rhipidomys sp. the biarmed chromosomes correspond in size to pairs 10, 15 and 16. The X chromosome also differed between both species, being biarmed in Rhipidomys sp. and acrocentric in Rhipidomys leucodactylus. Interestingly, the complement of Rhipidomys leucodactylus seemed identical to that of Rhipidomys macrurus from Goiás (Svartman and Almeida 1993), but the absence of GTG-banding patterns of Rhipidomys leucodactylus in the literature hindered further comparisons.

In Rhipidomys itoan with 2n=44 and FN=48 the smallest autosome pair was a submetacentric (Costa et al. 2011), differing from the acrocentric smallest autosome of Rhipidomys sp. presented herein. Morphological variations were observed in two large pairs of Rhipidomys itoan, that could be acrocentric or biarmed, leading to higher fundamental numbers (FN=49 and 50). No such variation was detected in our specimens.

The absence of banding patterns descriptions limited the comparisons of the complement of R. sp. described in this work and those of Rhipidomys itoan and Rhipidomys leucodactylus to conventionally stained chromosomes.

The Rhipidomys species already recorded in Minas Gerais were Rhipidomys macrurus, which is probably distributed in the remaining Cerrado fragments of the state, Rhipidomys mastacalis, which was collected in the Atlantic Forest in eastern and southern Minas Gerais, and Rhipidomys tribei, known from only a few sites in the southeastern part of Minas Gerais (Tribe 1996, Bonvicino et al. 2008; Costa et al. 2011).

Rhipidomys mastacalis is characterized by a high fundamental number (FN=74 through 80) (Zanchin et al. 1992, Paresque et al. 1994, Tribe 1996, Andrades-Miranda et al. 2002) which promptly allows to differentiate its karyotype from that of Rhipidomys sp. (FN=48). On the other hand, Rhipidomys macrurus (FN=48-50; variation due to polymorphism in the morphology of pair 10) (Svartman and Almeida 1993, Pereira and Geise 2007) presented a complement very similar to that of Rhipidomys sp. (FN=48). Nevertheless, as discussed above, the two karyotypes differ in the morphology of the smallest autosome pair (pair 19, acrocentric in Rhipidomys sp., and pair 21, metacentric in Rhipidomys macrurus), and in the amount of constitutive heterochromatin, which can thus be used to differentiate both species. No chromosome data are available for Rhipidomys tribei.

FISH with telomere sequences has been previously performed in specimens of Rhipidomys nitela, Rhipidomys mastacalis and Rhipidomys leucodactylus (Andrades-Miranda et al. 2002), Rhipidomys prope mastacalis and in animals of two unidentified species (Silva and Yonenaga-Yassuda 1999). As for Rhipidomys sp. presented herein, only terminal signals were observed in the cells of all these specimens. Interstitial signals, which could give clues on chromosome rearrangements, have not been observed in Rhipidomys as yet.

The identification of Rhipidomys specimens from southeastern Brazil at the species-level has proven to be specially challenging, with Rhipidomys macrurus and Rhipidomys mastacalis being among the most taxonomically complicated taxa studied (Musser and Carleton 2005; Tribe 1996, Costa et al. 2011).

Chromosome analyses may be useful for the identification of species, especially in complicated taxonomic groups, as is the case of many rodent taxa. As stressed by Tribe (1996), the use of non-morphological characters, as karyotypes, allozymes and DNA sequences, may help in clarifying the phylogenetic relationships and in the taxonomic identification of Rhipidomys species. This prediction has proven right in works like those of Costa et al. (2011) and Rocha et al. (2011), which used molecular data to further the knowledge of the genus, resulting in the description of new species and in the clarification of some phylogenetic relationships. Likewise, karyotypical data, especially those including banding patterns, are likely to add new information and to help in clarifying the taxonomy and phylogenetics of this intriguing rodent genus.

With the available data, it seems evident that a larger collection effort including a wider geographical range and complemented by cytogenetic and molecular studies will be needed in order to establish the phylogenetic relationships and phylogeography of Rhipidomys in Brazil. Nevertheless, as exemplified in this work, the use of chromosome data has already proven to be a useful tool in resolving taxonomic issues in this genus.