Chromosome painting among Proboscidea, Hyracoidea and Sirenia: support for Paenungulata (Afrotheria, Mammalia) but not Tethytheria

Despite marked improvements in the interpretation of systematic relationships within Eutheria, particular nodes, including Paenungulata (Hyracoidea, Sirenia and Proboscidea), remain ambiguous. The combination of a rapid radiation, a deep divergence and an extensive morphological diversification has resulted in a limited phylogenetic signal confounding resolution within this clade both at the morphological and nucleotide levels. Cross-species chromosome painting was used to delineate regions of homology between Loxodonta africana (2 n =56), Procavia capensis (2 n =54), Trichechus manatus latirostris (2 n =48) and an outgroup taxon, the aardvark ( Orycteropus afer , 2 n =20). Changes specific to each lineage were identified and although the presence of a minimum of 11 synapomorphies confirmed the monophyly of Paenungulata, no change characterizing intrapaenungulate relationships was evident. The reconstruction of an ancestral paenungulate karyotype and the estimation of rates of chromosomal evolution indicate a reduced rate of genomic repatterning following the paenungulate radiation. In comparison to data available for other mammalian taxa, the paenungulate rate of chromosomal evolution is slow to moderate. As a consequence, the absence of a chromosomal character uniting two paenungulates (at the level of resolution characterized in this study) may be due to a reduced rate of chromosomal change relative to the length of time separating successive divergence events.

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Chromosomal evolution among leaf-nosed nectarivorous bats – evidence from cross-species chromosome painting (Phyllostomidae, Chiroptera)

BMC Evolutionary Biology ◽

10.1186/1471-2148-13-276 ◽

2013 ◽

Vol 13 (1) ◽

pp. 276 ◽

Cited By ~ 10

Author(s):

Cibele G Sotero-Caio ◽

Marianne Volleth ◽

Lauren S Gollahon ◽

Beiyuan Fu ◽

William Cheng ◽

...

Keyword(s):

Chromosome Painting ◽

Chromosomal Evolution ◽

Cross Species Chromosome Painting

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Chromosomal painting of the sandpiper (Actitis macularius) detects several fissions for the Scolopacidae family (Charadriiformes)

BMC Ecology and Evolution ◽

10.1186/s12862-020-01737-x ◽

2021 ◽

Vol 21 (1) ◽

Author(s):

Melquizedec Luiz Silva Pinheiro ◽

Cleusa Yoshiko Nagamachi ◽

Talita Fernanda Augusto Ribas ◽

Cristovam Guerreiro Diniz ◽

Patricia Caroline Mary O´Brien ◽

...

Keyword(s):

Chromosome Painting ◽

Diploid Number ◽

Chromosomal Evolution ◽

Long Distance ◽

Chromosomal Painting ◽

Cytogenetic Studies ◽

Burhinus Oedicnemus ◽

Clear Idea ◽

First Time

Abstract Background The Scolopacidae family (Suborder Scolopaci, Charadriiformes) is composed of sandpipers and snipes; these birds are long-distance migrants that show great diversity in their behavior and habitat use. Cytogenetic studies in the Scolopacidae family show the highest diploid numbers for order Charadriiformes. This work analyzes for the first time the karyotype of Actitis macularius by classic cytogenetics and chromosome painting. Results The species has a diploid number of 92, composed mostly of telocentric pairs. This high 2n is greater than the proposed 80 for the avian ancestral putative karyotype (a common feature among Scolopaci), suggesting that fission rearrangements have formed smaller macrochromosomes and microchromosomes. Fluorescence in situ hybridization using Burhinus oedicnemus whole chromosome probes confirmed the fissions in pairs 1, 2, 3, 4 and 6 of macrochromosomes. Conclusion Comparative analysis with other species of Charadriiformes studied by chromosome painting together with the molecular phylogenies for the order allowed us to raise hypotheses about the chromosomal evolution in suborder Scolopaci. From this, we can establish a clear idea of how chromosomal evolution occurred in this suborder.

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Genome-Wide Comparative Chromosome Map between Human and the Forrest’s Pika (Ochotona forresti) Established by Cross-Species Chromosome Painting: Further Support for the Glires Hypothesis

Cytogenetic and Genome Research ◽

10.1159/000317082 ◽

2011 ◽

Vol 132 (1-2) ◽

pp. 41-46 ◽

Cited By ~ 6

Author(s):

J. Ye ◽

W. Nie ◽

J. Wang ◽

W. Su ◽

M. Jing ◽

...

Keyword(s):

Chromosome Painting ◽

Chromosome Map ◽

Genome Wide ◽

Cross Species Chromosome Painting

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Phylogenomic study of the subfamily Caprinae by cross-species chromosome painting with Chinese muntjac paints

Chromosome Research ◽

10.1007/s10577-005-0977-6 ◽

2005 ◽

Vol 13 (4) ◽

pp. 389-399 ◽

Cited By ~ 18

Author(s):

Ling Huang ◽

Wenhui Nie ◽

Jinhuan Wang ◽

Weiting Su ◽

Fengtang Yang

Keyword(s):

Chromosome Painting ◽

Cross Species Chromosome Painting ◽

Phylogenomic Study

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Chromosomal phylogeny and comparative chromosome painting among Neacomys species (Rodentia, Sigmodontinae) from eastern Amazonia

BMC Evolutionary Biology ◽

10.1186/s12862-019-1515-z ◽

2019 ◽

Vol 19 (1) ◽

Cited By ~ 4

Author(s):

Willam Oliveira da Silva ◽

Julio Cesar Pieczarka ◽

Marlyson Jeremias Rodrigues da Costa ◽

Malcolm Andrew Ferguson-Smith ◽

Patricia Caroline Mary O’Brien ◽

...

Keyword(s):

Phylogenetic Relationships ◽

Chromosome Painting ◽

Chromosomal Evolution ◽

Distribution Area ◽

Comparative Chromosome Painting ◽

Candidate Species ◽

Character Matrix ◽

Coi Sequences ◽

Molecular Relationships ◽

Chromosomal Phylogeny

Abstract Background The Neacomys genus is predominantly found in the Amazon region, and belongs to the most diverse tribe of the Sigmodontinae subfamily (Rodentia, Cricetidae, Oryzomyini). The systematics of this genus and questions about its diversity and range have been investigated by morphological, molecular (Cytb and COI sequences) and karyotype analysis (classic cytogenetics and chromosome painting), which have revealed candidate species and new distribution areas. Here we analyzed four species of Neacomys by chromosome painting with Hylaeamys megacephalus (HME) whole-chromosome probes, and compared the results with two previously studied Neacomys species and with other taxa from Oryzomyini and Akodontini tribes that have been hybridized with HME probes. Maximum Parsimony (MP) analyses were performed with the PAUP and T.N.T. software packages, using a non-additive (unordered) multi-state character matrix, based on chromosomal morphology, number and syntenic blocks. We also compared the chromosomal phylogeny obtained in this study with molecular topologies (Cytb and COI) that included eastern Amazonian species of Neacomys, to define the phylogenetic relationships of these taxa. Results The comparative chromosome painting analysis of the seven karyotypes of the six species of Neacomys shows that their diversity is due to 17 fusion/fission events and one translocation, pericentric inversions in four syntenic blocks, and constitutive heterochromatin (CH) amplification/deletion of six syntenic autosomal blocks plus the X chromosome. The chromosomal phylogeny is consistent with the molecular relationships of species of Neacomys. We describe new karyotypes and expand the distribution area for species from eastern Amazonia and detect complex rearrangements by chromosome painting among the karyotypes. Conclusions Our phylogeny reflects the molecular relationships of the Akodontini and Oryzomyini taxa and supports the monophyly of Neacomys. This work presents new insights about the chromosomal evolution of this group, and we conclude that the karyotypic divergence is in accord with phylogenetic relationships.

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Chromosomal evolution and phylogeny in the Nullicauda group (Chiroptera, Phyllostomidae): evidence from multidirectional chromosome painting

BMC Evolutionary Biology ◽

10.1186/s12862-018-1176-3 ◽

2018 ◽

Vol 18 (1) ◽

Cited By ~ 1

Author(s):

Anderson José Baia Gomes ◽

Cleusa Yoshiko Nagamachi ◽

Luis Reginaldo Ribeiro Rodrigues ◽

Malcolm Andrew Ferguson-Smith ◽

Fengtang Yang ◽

...

Keyword(s):

Chromosome Painting ◽

Chromosomal Evolution

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Marsupial chromosome DNA content and genome size assessed from flow karyotypes: invariable low autosomal GC content

Royal Society Open Science ◽

10.1098/rsos.171539 ◽

2018 ◽

Vol 5 (8) ◽

pp. 171539 ◽

Cited By ~ 3

Author(s):

Fumio Kasai ◽

Patricia C. M. O'Brien ◽

Jorge C. Pereira ◽

Malcolm A. Ferguson-Smith

Keyword(s):

Genome Size ◽

Dna Content ◽

Chromosome Painting ◽

Gc Content ◽

Tammar Wallaby ◽

Individual Chromosome ◽

Tasmanian Devil ◽

Marsupial Species ◽

Cross Species Chromosome Painting ◽

High Level

Extensive chromosome homologies revealed by cross-species chromosome painting between marsupials have suggested a high level of genome conservation during evolution. Surprisingly, it has been reported that marsupial genome sizes vary by more than 1.2 Gb between species. We have shown previously that individual chromosome sizes and GC content can be measured in flow karyotypes, and have applied this method to compare four marsupial species. Chromosome sizes and GC content were calculated for the grey short-tailed opossum (2 n = 18), tammar wallaby (2 n = 16), Tasmanian devil (2 n = 14) and fat-tailed dunnart (2 n = 14), resulting in genome sizes of 3.41, 3.31, 3.17 and 3.25 Gb, respectively. The findings under the same conditions allow a comparison between the four species, indicating that the genomes of these four species are 1–8% larger than human. We show that marsupial genomes are characterized by a low GC content invariable between autosomes and distinct from the higher GC content of the marsupial × chromosome.

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