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Buasriyot P, Sassi FDMC, Donbundit N, Supiwong W, Kaewsri S, Jumrusthanasan S, Seetapan K, Pinthong K, Tanomtong A, Yanukun K, Muanglen N, Liehr T, de Bello Cioffi M. Comparative karyotypic study of fifteen cyprinids (Cyprinidae, Cyprininae) species. An insight into the chromosomal evolution of the tribe Systomini. PLoS One 2024; 19:e0305828. [PMID: 39024404 PMCID: PMC11257272 DOI: 10.1371/journal.pone.0305828] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2024] [Accepted: 06/05/2024] [Indexed: 07/20/2024] Open
Abstract
The family Cyprinidae is the largest freshwater fish group with 377 genera and over 3,000 described species. However, this group of fish has very limited cytogenetics and advanced molecular cytogenetics information. Therefore, in this study the karyotypes and other chromosomal characteristics of 15 species in the tribe Systomini (Cyprininae) were examined using Ag-NOR staining along with fluorescence in situ hybridization (5S and 18S rDNA). All species share a similar karyotype (2n = 50; NF = 88-100) in both sexes and no differentiated sex chromosome was observed. Chromosomes bearing NOR sites ranged from one to four pairs among the species, mostly mapped adjacent to telomeres in the short arms of distinct pairs in all analyzed species. This difference indicates an extensive rearrangement of chromosomes including genomic differences. The use of the 5S and 18S rDNA probe confirmed the Ag-NOR sites interstitially located in the telomeric regions of distinct chromosomes, characterizing an interspecies variation of these sites. In most of its analyzed species, the signals of 18S rDNA probe corresponded to the Ag-NOR regions, except in Barbonymus altus, B. gonionotus, B. schwanenfeldii and Puntius brevis having these signals on the same as Ag-NOR regions and other sites.
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Affiliation(s)
- Phichaya Buasriyot
- Animals Cytogenetics Research Group, Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen, Thailand
| | | | - Nuttasuda Donbundit
- Animals Cytogenetics Research Group, Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen, Thailand
| | - Weerayuth Supiwong
- Faculty of Interdisciplinary Studies, Nong Khai Campus, Khon Kaen University, Muang, Nong Khai, Thailand
| | - Sarawut Kaewsri
- Biology Program, Department of Science, Faculty of Science, Buriram Rajabhat University, Muang, Buriram, Thailand
| | - Sarun Jumrusthanasan
- Biology Program, Department of Science, Faculty of Science, Buriram Rajabhat University, Muang, Buriram, Thailand
| | - Kriengkrai Seetapan
- School of Agriculture and Natural Resources, University of Phayao, Muang District, Phayao Province, Thailand
| | - Krit Pinthong
- Department of Fundamental Science, Faculty of Science and Technology, Surindra Rajabhat University, Muang, Surin, Thailand
| | - Alongklod Tanomtong
- Animals Cytogenetics Research Group, Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen, Thailand
| | - Klodthida Yanukun
- Animals Cytogenetics Research Group, Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen, Thailand
| | - Nawarat Muanglen
- Department 0f Fisheries, Faculty of Agricultural Technology, Sakon Nakhon Rajabhat University, Muang, Sakon Nakhon, Thailand
| | - Thomas Liehr
- Institute of Human Genetics, University Hospital Jena, Friedrich Schiller University, Jena, Germany
| | - Marcelo de Bello Cioffi
- Departamento de Genética e Evolução, Universidade Federal de São Carlos (UFSCar), São Carlos, SP, Brazil
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Schott SCQ, Glugoski L, Azambuja M, Moreira-Filho O, Vicari MR, Nogaroto V. Comparative Cytogenetic and Sequence Analysis of U Small Nuclear RNA Genes in Three Ancistrus Species (Siluriformes: Loricariidae). Zebrafish 2022; 19:200-209. [PMID: 36099209 DOI: 10.1089/zeb.2022.0040] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Abstract
Ancistrus presents a wide karyotypic diversity, resulting from numeric and structural chromosomal rearrangements. It has been proposed that some genome-specific regions containing repetitive units could organize prone-to-break DNA sites in Loricariidae, triggering chromosomal rearrangements such as Robertsonian fusions (Rb fusions), centric fissions, translocations, and inversions. The tandemly repeats of the small nuclear RNAs (snRNAs) gene families are considered good cytogenetic markers for understanding chromosomal remodeling events among closely related species, but these snRNAs have been scarcely analyzed in Ancistrus. This study presented the nucleotide sequencing and comparative in situ location of U snRNA sequences from Ancistrus aguaboensis, Ancistrus cf. multispinis, and Ancistrus sp. (2n = 50, 52, and 50, respectively), aiming to provide information about snRNA clusters in the genome and chromosome evolution in Ancistrus. U snRNA nucleotide sequences of Ancistrus presented identity to orthologous copies and folded their secondary structures correctly. In situ localization and karyotyping of the three Ancistrus species revealed clustered copies of U2 and U5 snRNA gene families to a single chromosome site, one chromosome pair bearing U1 snRNA sequence, and one main locus of U4 snRNA sequence, besides scattered signals along the chromosomes. Previous studies related the participation of the rRNA gene families in centric fusion events, contributing to chromosome rearrangements and karyotype plasticity present in Loricariidae. In this study, homeologies in U snRNA loci chromosomal locations were detected, indicating the occurrence of conserved sites of these gene families in these three Ancistrus species with 2n = 50 or 52 chromosomes.
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Affiliation(s)
| | - Larissa Glugoski
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, São Carlos, Brazil
| | - Matheus Azambuja
- Departamento de Genética, Programa de Pós-Graduação em Genética, Universidade Federal do Paraná, Curitiba, Brazil
| | - Orlando Moreira-Filho
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, São Carlos, Brazil
| | - Marcelo Ricardo Vicari
- Departamento de Biologia Estrutural, Molecular e Genética, Universidade Estadual de Ponta Grossa, Ponta Grossa, Brazil
| | - Viviane Nogaroto
- Departamento de Biologia Estrutural, Molecular e Genética, Universidade Estadual de Ponta Grossa, Ponta Grossa, Brazil
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3
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Azambuja M, Orane Schemberger M, Nogaroto V, Moreira-Filho O, Martins C, Ricardo Vicari M. Major and minor U small nuclear RNAs genes characterization in a neotropical fish genome: Chromosomal remodeling and repeat units dispersion in Parodontidae. Gene 2022; 826:146459. [PMID: 35358649 DOI: 10.1016/j.gene.2022.146459] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/19/2021] [Revised: 01/15/2022] [Accepted: 03/25/2022] [Indexed: 11/29/2022]
Abstract
In association with many proteins, small nuclear RNAs (snRNAs) organize the spliceosomes that play a significant role in processing precursor mRNAs during gene expression. According to snRNAs genic arrangements, two kinds of spliceosomes (major and minor) can be organized into eukaryotic cells. Although in situ localization of U1 and U2 snDNAs have been performed in fish karyotypes, studies with genomic characterization and functionality of U snRNAs integrated into chromosomal changes on Teleostei are still scarce. This study aimed to achieve a genomic characterization of the U snRNAs genes in Apareiodon sp. (2n = 54, ZZ/ZW), apply these data to recognize functional/defective copies, and map chromosomal changes involving snDNAs in Parodontidae species karyotype diversification. Nine snRNA multigene families (U1, U2, U4, U5, U6, U11, U12, U4atac and U6atac) arranged in putatively functional copies in the genome were analyzed. Proximal Sequence Elements (PSE) and TATA-box promoters occurrence, besides an entire transcribed region and conserved secondary structures, qualify them for spliceosome activity. In addition, several defective copies or pseudogenes were identified for the snRNAs that make up the major spliceosome. In situ localization of snDNAs in five species of Parodontidae demonstrated that U1, U2, and U4 snDNAs were involved in chromosomal location changes or units dispersion. The U snRNAs defective/pseudogenes units dispersion could be favored by the probable occurrence of active retrotransposition enzymes in the Apareiodon genome. The U2 and U4 snDNAs sites were involved in independent events in the differentiation of sex chromosomes among Parodontidae lineages. The study characterized U snRNA genes that compose major and minor spliceosomes in the Apareiodon sp. genome and proposes that their defective copies trigger chromosome differentiation and diversification events in Parodontidae.
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Affiliation(s)
- Matheus Azambuja
- Programa de Pós-Graduação em Genética, Universidade Federal do Paraná, Centro Politécnico, Avenida Coronel Francisco H. dos Santos, 100, 81531-990 Curitiba, Paraná, Brazil.
| | - Michelle Orane Schemberger
- Programa de Pós-Graduação em Genética, Universidade Federal do Paraná, Centro Politécnico, Avenida Coronel Francisco H. dos Santos, 100, 81531-990 Curitiba, Paraná, Brazil.
| | - Viviane Nogaroto
- Departamento de Biologia Estrutural, Molecular e Genética, Universidade Estadual de Ponta Grossa, Av. Carlos Cavalcanti, 4748, 84030-900 Ponta Grossa, Paraná, Brazil.
| | - Orlando Moreira-Filho
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, Rodovia Washington Luís, Km 235, 13565-905 São Carlos, São Paulo, Brazil.
| | - Cesar Martins
- Departamento de Morfologia, Instituto de Biociências de Botucatu, Universidade Estadual Paulista, Distrito de Rubião Júnior, s/n, 18618-689 Botucatu, São Paulo, Brazil.
| | - Marcelo Ricardo Vicari
- Programa de Pós-Graduação em Genética, Universidade Federal do Paraná, Centro Politécnico, Avenida Coronel Francisco H. dos Santos, 100, 81531-990 Curitiba, Paraná, Brazil; Departamento de Biologia Estrutural, Molecular e Genética, Universidade Estadual de Ponta Grossa, Av. Carlos Cavalcanti, 4748, 84030-900 Ponta Grossa, Paraná, Brazil.
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Yeesin P, Buasriyot P, Ditcharoen S, Chaiyasan P, Suwannapoom C, Juntaree S, Jantarat S, Talumphai S, Cioffi MDB, Liehr T, Tanomtong A, Supiwong W. Comparative study of four Mystus species (Bagridae, Siluriformes) from Thailand: insights into their karyotypic diversity. COMPARATIVE CYTOGENETICS 2021; 15:119-136. [PMID: 33959235 PMCID: PMC8093182 DOI: 10.3897/compcytogen.v15i2.60649] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/11/2020] [Accepted: 03/21/2021] [Indexed: 06/12/2023]
Abstract
Karyotypes of four catfishes of the genus Mystus Scopoli, 1777 (family Bagridae), M. atrifasciatus Fowler, 1937, M. mysticetus Roberts, 1992, M. singaringan (Bleeker, 1846) and M. wolffii (Bleeker, 1851), were analysed by conventional and Ag-NOR banding as well as fluorescence in situ hybridization (FISH) techniques. Microsatellite d(GC)15, d(CAA)10, d(CAT)10 and d(GAA)10 repeat probes were applied in FISH. The obtained data revealed that the four studied species have different chromosome complements. The diploid chromosome numbers (2n) and the fundamental numbers (NF) range between 52 and 102, 54 and 104, 56 and 98, or 58 and 108 in M. mysticetus, M. atrifasciatus, M. singaringan or M. wolffii, respectively. Karyotype formulae of M. mysticetus, M. atrifasciatus, M. singaringan and M. wolffii are 24m+26sm+4a, 26m+24sm+2a, 24m+18sm+14a and 30m+22sm+6a, respectively. A single pair of NORs was identified adjacent to the telomeres of the short arm of chromosome pairs 3 (metacentric) in M. atrifasciatus, 20 (submetacentric) in M. mysticetus, 15 (submetacentric) in M. singaringan, and 5 (metacentric) in M. wolffii. The d(GC)15, d(CAA)10, d(CAT)10 and d(GAA)10 repeats were abundantly distributed in species-specific patterns. Overall, we present a comparison of cytogenetic and molecular cytogenetic patterns of four species from genus Mystus providing insights into their karyotype diversity in the genus.
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Affiliation(s)
- Pun Yeesin
- Department of Technology and Industries, Faculty of Science and Technology, Prince of Songkla University, Pattani Campus, Muang, Pattani 94000, Thailand
| | - Phichaya Buasriyot
- Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen 40002, Thailand
| | - Sukhonthip Ditcharoen
- Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen 40002, Thailand
| | - Patcharaporn Chaiyasan
- Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen 40002, Thailand
| | - Chatmongkon Suwannapoom
- Department of Fishery, School of Agriculture and Natural Resources, University of Phayao, Muang, Phayao 56000, Thailand
| | - Sippakorn Juntaree
- Applied Science Program, Faculty of Interdisciplinary Studies, Nong Khai Campus, Khon Kaen University, Muang, Nong Khai 43000, Thailand
| | - Sitthisak Jantarat
- Department of Science, Faculty of Science and Technology, Prince of Songkla University, Pattani Campus, Mueng, Pattani 94000, Thailand
| | - Sucheela Talumphai
- Major Biology, Department of Science and Technology, Faculty of Liberal Arts and Science, Roi Et Rajabhat University, Roi Et 45120, Thailand
| | - Marcelo de Bello Cioffi
- Departamento de Genética e Evolução, Universidade Federal de São Carlos (UFSCar), Rodovia Washington Luiz Km. 235, C.P. 676, São Carlos, SP 13565-905, Brazil
| | - Thomas Liehr
- Jena University Hospital, Friedrich Schiller University, Institute of Human Genetics, Am Klinikum 1, D-07747, Jena, Germany
| | - Alongklod Tanomtong
- Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen 40002, Thailand
| | - Weerayuth Supiwong
- Applied Science Program, Faculty of Interdisciplinary Studies, Nong Khai Campus, Khon Kaen University, Muang, Nong Khai 43000, Thailand
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Phimphan S, Aiumsumang S, Tanomtong A, Jantarat S. Karyomorphological delineation and linear differentiation of microsatellite patterns, and meiosis in giant Asian river frog (Limnonectes blyhii) from Thailand. THE NUCLEUS 2020. [DOI: 10.1007/s13237-020-00315-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022] Open
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6
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Grabowska AI, Boroń A, Kirtiklis L, Spóz A, Juchno D, Kotusz J. Chromosomal inheritance of parental rDNAs distribution pattern detected by FISH in diploid F 1 hybrid progeny of Cobitis (Teleostei, Cobitidae) species has non-Mendelian character. JOURNAL OF FISH BIOLOGY 2020; 96:261-273. [PMID: 31755097 DOI: 10.1111/jfb.14216] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/26/2019] [Accepted: 11/21/2019] [Indexed: 06/10/2023]
Abstract
This study was conducted to describe the major and the minor rDNA chromosome distribution in the spined loach Cobitis taenia (2n = 48) and the Danubian loach Cobitis elongatoides (2n = 50), and their laboratory-produced diploid reciprocal F1 hybrid progeny. It was tested by fluorescence in situ hybridisation (FISH) whether the number of 28s and 5s rDNA sites in the karyotypes of diploid hybrids corresponds to the expectations resulting from Mendelian ratio and if nucleolar organiser regions (NOR)were inherited from both parents or nucleolar dominance can be observed in the induced F1 hybrid progeny. Ten (females) or twelve (males) 28s rDNA loci were located in nine uniarm chromosomes of C. taenia. Two of such loci terminally bounded on one acrocentric chromosome were unique and indicated as specific for this species. Large 5s rDNA clusters were located on two acrocentric chromosomes. In C. elongatoides of both sexes, six NOR sites in terminal regions on six meta-submetacentric chromosomes and two 5s rDNA sites on large submetacentrics were detected. The F1 hybrid progeny (2n = 49) was characterised by the intermediate karyotype with the sites of ribosome synthesis on chromosomes inherited from both parents without showing nucleolar dominance. 5s rDNA sites were detected on large submetacentric and two acrocentric chromosomes. The observed number of both 28s and 5s rDNAs signals in F1 diploid Cobitis hybrids was disproportionally inherited from the two parental species, showing inconsistency with the Mendelian ratios. The presented rDNA patterns indicate some marker chromosomes that allow the species of the parental male and female to be recognised in hybrid progeny. The 5s rDNA was found to be a particularly effective diagnostic marker of C. elongatoides to partially discern genomic composition of diploid Cobitis hybrids and presumably allopolyploids resulting from their backcrossing with one of the parental species. Thus, the current study provides insight into the extent of rDNA heredity in Cobitis chromosomes and their cytotaxonomic character.
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Affiliation(s)
- Anna I Grabowska
- Department of Zoology, University of Warmia and Mazury, Olsztyn, Poland
| | - Alicja Boroń
- Department of Zoology, University of Warmia and Mazury, Olsztyn, Poland
| | - Lech Kirtiklis
- Department of Zoology, University of Warmia and Mazury, Olsztyn, Poland
| | - Aneta Spóz
- Department of Zoology, University of Warmia and Mazury, Olsztyn, Poland
| | - Dorota Juchno
- Department of Zoology, University of Warmia and Mazury, Olsztyn, Poland
| | - Jan Kotusz
- Museum of Natural History, University of Wroclaw, Wroclaw, Poland
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Phimphan S, Chaiyasan P, Suwannapoom C, Reungsing M, Juntaree S, Tanomtong A, Supiwong W. Comparative karyotype study of three Cyprinids (Cyprinidae, Cyprininae) in Thailand by classical cytogenetic and FISH techniques. COMPARATIVE CYTOGENETICS 2020; 14:597-612. [PMID: 33384854 PMCID: PMC7772283 DOI: 10.3897/compcytogen.v14i4.54428] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2020] [Accepted: 06/27/2020] [Indexed: 05/13/2023]
Abstract
Three species of ornamental fishes in the subfamily Cyprininae (family Cyprinidae) namely, Epalzeorhynchos frenatum (Fowler, 1934), Puntigrus partipentazona (Fowler, 1934), Scaphognathops bandanensis Boonyaratpalin et Srirungroj, 1971 were studied by classical cytogenetic and fluorescent in situ hybridization (FISH) techniques. Chromosomes were directly prepared from kidney tissues and stained by using conventional and Ag-NOR banding techniques. Microsatellite d(CA)15 and d(CGG)10 probes were hybridized to the chromosomes of three cyprinids. The results show that the three cyprinid species share the same diploid number as 2n=50 but there are differences in the fundamental number (NF) and karyotypes i.e. E. frenatum: NF = 78, 18m+10sm+10st+12a; P. partipentazona: NF = 80, 6m+24sm+14st+6a; S. bandanensis: NF = 66, 4m+12sm+34a. NOR positive masks were observed at the regions adjacent to the telomere of the short arm of the chromosome pairs 10 (submetacentric) and 1 (metacentric) in E. frenatum and P. partipentazona, respectively whereas those were revealed at telomeric regions of the long arm of the chromosome pair 9 (acrocentric) in S. bandanensis. The mapping of d(CA)15 and d(CGG)10 microsatellites shown that hybridization signals are abundantly distributed in telomeric regions of several pairs except d(CA)15 repeats in S. bandanensis, which are distributed throughout all chromosomes and d(CGG)10 repeats in P. partipentazona display the high accumulation only in the first chromosome pair.
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Affiliation(s)
- Sumalee Phimphan
- Biology program, Faculty of Science and Technology, Phetchabun Rajabhat University, Phetchabun 67000, ThailandPhetchabun Rajabhat UniversityPhetchabunThailand
| | - Patcharaporn Chaiyasan
- Toxic Substances in Livestock and Aquatic Animals Research Group, Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen 40002, ThailandKhon Kaen UniversityKhon KaenThailand
| | - Chatmongkon Suwannapoom
- Department of Fishery, School of Agriculture and Natural Resources, University of Phayao, Muang, Phayao 56000, ThailandUniversity of PhayaoPhayaoThailand
| | - Montri Reungsing
- Department of Biotechnology, Faculty of Science and Technology, Rajamangala University of Technology Tawan-ok, Sri Racha, Chon Buri 20110, ThailandRajamangala UniversityChon BuriThailand
| | - Sippakorn Juntaree
- Faculty of Interdisciplinary Studies, Nong Khai Campus, Khon Kaen, University, Muang, Nong Khai 43000, ThailandKhon Kaen UniversityNong KhaiThailand
| | - Alongklod Tanomtong
- Toxic Substances in Livestock and Aquatic Animals Research Group, Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen 40002, ThailandKhon Kaen UniversityKhon KaenThailand
| | - Weerayuth Supiwong
- Faculty of Interdisciplinary Studies, Nong Khai Campus, Khon Kaen, University, Muang, Nong Khai 43000, ThailandKhon Kaen UniversityNong KhaiThailand
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Bertocchi NA, de Oliveira TD, Del Valle Garnero A, Coan RLB, Gunski RJ, Martins C, Torres FP. Distribution of CR1-like transposable element in woodpeckers (Aves Piciformes): Z sex chromosomes can act as a refuge for transposable elements. Chromosome Res 2018; 26:333-343. [PMID: 30499043 DOI: 10.1007/s10577-018-9592-1] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2018] [Revised: 10/14/2018] [Accepted: 11/13/2018] [Indexed: 11/28/2022]
Abstract
Birds have relatively few repetitive sequences compared to other groups of vertebrates; however, the members of order Piciformes (woodpeckers) have more of these sequences, composed mainly of transposable elements (TE). The TE most often found in birds is a retrotransposon chicken repeat 1 (CR1). Piciformes lineages were subjected to an expansion of the CR1 elements, carrying a larger fraction of transposable elements. This study compared patterns of chromosome distribution among five bird species, through chromosome mapping of the CR1 sequence and reconstructed their phylogenetic tree. We analyzed several members of Piciformes (Colaptes campestris, Colaptes melanochloros, Melanerpes candidus, and Veniliornis spilogaster), as well as Galliformes (Gallus gallus). Gallus gallus is the species with which most genomic and hence cytogenetic studies have been performed. The results showed that CR1 sequences are a monophyletic group and do not depend on their hosts. All species analyzed showed a hybridization signal by fluorescence in situ hybridization (FISH). In all species, the chromosomal distribution of CR1 was not restricted to heterochromatin regions in the macrochromosomes, principally pair 1 and the Z sex chromosome. Accumulation in the Z sex chromosomes can serve as a refuge for transposable elements. These results highlight the importance of transposable elements in host genomes and karyotype evolution.
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Affiliation(s)
- Natasha Avila Bertocchi
- Programa de Pós-graduação em Genética e Biologia Molecular, Universidade Federal do Rio Grande do Sul (UFRGS), Porto Alegre, Rio Grande do Sul, 91501-970, Brazil.
| | - Thays Duarte de Oliveira
- Programa de Pós-graduação em Biologia Animal, Universidade Federal do Rio Grande do Sul (UFRGS), Porto Alegre, Rio Grande do Sul, 91540-000, Brazil
| | - Analía Del Valle Garnero
- Programa de Pós-graduação em Ciências Biológicas, Universidade Federal do Pampa (Unipampa), São Gabriel, Rio Grande do Sul, 97300-000, Brazil.,Laboratório de Diversidade Genética Animal, Universidade Federal do Pampa (Unipampa), São Gabriel, Rio Grande do Sul, 97300-000, Brazil
| | - Rafael Luiz Buogo Coan
- Departamento de Morfologia, Laboratório Genômica Integrativa, Universidade Estadual Paulista (UNESP), Botucatu, São Paulo, 18618-689, Brazil
| | - Ricardo José Gunski
- Programa de Pós-graduação em Ciências Biológicas, Universidade Federal do Pampa (Unipampa), São Gabriel, Rio Grande do Sul, 97300-000, Brazil.,Laboratório de Diversidade Genética Animal, Universidade Federal do Pampa (Unipampa), São Gabriel, Rio Grande do Sul, 97300-000, Brazil
| | - Cesar Martins
- Departamento de Morfologia, Laboratório Genômica Integrativa, Universidade Estadual Paulista (UNESP), Botucatu, São Paulo, 18618-689, Brazil
| | - Fabiano Pimentel Torres
- Programa de Pós-graduação em Ciências Biológicas, Universidade Federal do Pampa (Unipampa), São Gabriel, Rio Grande do Sul, 97300-000, Brazil.,Laboratório de Diversidade Genética Animal, Universidade Federal do Pampa (Unipampa), São Gabriel, Rio Grande do Sul, 97300-000, Brazil
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Supiwong W, Getlakha N, Chaiphech S, Pinthong K, Phimphan S, Tanomtong A. Nucleolar Organizer Regions Polymorphism and Karyological Analysis of Black Lancer, Bagrichthys majusculus (Siluriformes, Bagridae) in Thailand. CYTOLOGIA 2018. [DOI: 10.1508/cytologia.83.193] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
| | - Nuntaporn Getlakha
- Department of Biology, Faculty of Science and Technology, Muban Chombueng Rajabhat University
| | - Somkid Chaiphech
- Department of Animal Science, Faculty of Agriculture, Rajamangala University of Techonlogy Srivijaya
| | - Krit Pinthong
- Department of Fundamental Science, Faculty of Science and Technology, Surindra Rajabhat University
| | - Sumalee Phimphan
- Toxic Substances in Livestock and Aquatic Animals Research Group, Department of Biology, Faculty of Science, Khon Kaen University
| | - Alongklod Tanomtong
- Toxic Substances in Livestock and Aquatic Animals Research Group, Department of Biology, Faculty of Science, Khon Kaen University
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Utsunomia R, Melo S, Scacchetti PC, Oliveira C, Machado MDA, Pieczarka JC, Nagamachi CY, Foresti F. Particular Chromosomal Distribution of Microsatellites in Five Species of the Genus Gymnotus (Teleostei, Gymnotiformes). Zebrafish 2018; 15:398-403. [PMID: 29927722 DOI: 10.1089/zeb.2018.1570] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
Microsatellites show great abundance in eukaryotic genomes, although distinct chromosomal distribution patterns might be observed, from small dispersed signals to strong clustered motifs. In Neotropical fishes, the chromosome mapping of distinct microsatellites was employed several times to uncover the origin and evolution of sex and supernumerary chromosomes, whereas a detailed comparative analysis considering different motifs at the chromosomal level is scarce. Here, we report the chromosomal location of several simple sequence repeats (SSRs) in distinct electric knife fishes showing variable diploid chromosome numbers to unveil the structural organization of several microsatellite motifs in distinct Gymnotus species. Our results showed that some SSRs are scattered throughout the genomes, whereas others are particularly clustered displaying intense genomic compartmentalization. Interestingly, the motifs CA, GA, and GAG exhibited a band-like pattern of hybridization, useful for the identification of homologous chromosomes. Finally, the colocalization of SSRs with multigene families is probably related to the association of microsatellites with gene spacers in this case.
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Affiliation(s)
- Ricardo Utsunomia
- 1 Laboratório de Biologia e Genética de Peixes, Department of Morphology, Institute of Biosciences of Botucatu, São Paulo State University , Botucatu, SP, Brazil
| | - Silvana Melo
- 1 Laboratório de Biologia e Genética de Peixes, Department of Morphology, Institute of Biosciences of Botucatu, São Paulo State University , Botucatu, SP, Brazil
| | - Priscilla Cardim Scacchetti
- 1 Laboratório de Biologia e Genética de Peixes, Department of Morphology, Institute of Biosciences of Botucatu, São Paulo State University , Botucatu, SP, Brazil
| | - Claudio Oliveira
- 1 Laboratório de Biologia e Genética de Peixes, Department of Morphology, Institute of Biosciences of Botucatu, São Paulo State University , Botucatu, SP, Brazil
| | - Milla de Andrade Machado
- 2 Laboratório de Citogenética, Centro de Estudos Avançados da Biodiversidade, Instituto de Ciências Biológicas, Universidade Federal do Pará , Belém, PA, Brazil
| | - Julio Cesar Pieczarka
- 2 Laboratório de Citogenética, Centro de Estudos Avançados da Biodiversidade, Instituto de Ciências Biológicas, Universidade Federal do Pará , Belém, PA, Brazil
| | - Cleusa Yoshiko Nagamachi
- 2 Laboratório de Citogenética, Centro de Estudos Avançados da Biodiversidade, Instituto de Ciências Biológicas, Universidade Federal do Pará , Belém, PA, Brazil
| | - Fausto Foresti
- 1 Laboratório de Biologia e Genética de Peixes, Department of Morphology, Institute of Biosciences of Botucatu, São Paulo State University , Botucatu, SP, Brazil
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11
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Xu D, Molina WF, Yano CF, Zhang Y, de Oliveira EA, Lou B, de Bello Cioffi M. Comparative cytogenetics in three Sciaenid species (Teleostei, Perciformes): evidence of interspecific chromosomal diversification. Mol Cytogenet 2017; 10:37. [PMID: 29075328 PMCID: PMC5654061 DOI: 10.1186/s13039-017-0338-0] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2017] [Accepted: 10/17/2017] [Indexed: 11/28/2022] Open
Abstract
Background Species belonging to the Sciaenidae family present a karyotype composed by 48 acrocentric chromosomes and are thus considered a striking example of chromosomal conservation. In this family, three species are extensively studied including Larimichthys crocea, Larimichthys polyactis and Nibea albiflora due to their importance in fishery and aquaculture in East Asia. Despite abundant data of population genetics available for some of them, cytogenetic information on these species is still scarce and obtained by conventional cytogenetic protocols. Therefore, a more detailed cytogenomic investigation was performed in these species to analyze their karyotype differentiation using conventional staining techniques and fluorescence in situ hybridization to map several repetitive DNAs. Results The three species showed a slight karyotype differentiation with 4sm + 2st + 42a in L. polyactis, 20st + 28a in L. crocea and 48a in N. albiflora. Additionally, the mapping of repetitive sequences further revealed a number of interspecific differences among them. Particularly, 18S and 5S rDNA sites showed syntenic arrangements in N. albiflora and non-syntenic arrangements in both Larimichthys species. The microsatellites (CA)15 and (GA)15 showed conspicuous terminal clusters in some chromosomes of all species. On the other hand, (CGG)10 repeats, Rex6 elements and U2 snRNA displayed a scattered distribution on the chromosomes. Conclusions Although the three Sciaenid species examined displayed a general pattern of karyotypic conservatism, we explored chromosomal diversification among them. The diversificated karyotypic macrostructure is followed by intergeneric evolutionary diversification of the repetitive sequences. The data indicate some degree of intergeneric evolutionary diversification at chromosomal level, and suggest the evolutionary dynamics among Sciaenid species, higher than previously thought. The present cytogenetic data provide new insight into the chromosomal diversification in Sciaenidae, and contribute to inferring the chromosomal rearrangements and trends of karyotype evolution in this fish group.
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Affiliation(s)
- Dongdong Xu
- Marine Fishery Institute of Zhejiang Province, Key Lab of Mariculture and Enhancement of Zhejiang Province, 316100 Zhoushan, Zhejiang Province People's Republic of China
| | - Wagner Franco Molina
- Departamento de Biologia Celular e Genética, Centro de Biociências, Universidade Federal do Rio Grande do Norte, Campus Universitário, Lagoa Nova, 3000, Natal, RN 59078-970 Brazil
| | - Cassia Fernanda Yano
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, Rodovia Washington Luís, km 235, São Carlos, SP 13565-905 Brazil
| | - Yurong Zhang
- Marine Fishery Institute of Zhejiang Province, Key Lab of Mariculture and Enhancement of Zhejiang Province, 316100 Zhoushan, Zhejiang Province People's Republic of China
| | - Ezequiel Aguiar de Oliveira
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, Rodovia Washington Luís, km 235, São Carlos, SP 13565-905 Brazil.,Secretaria de Estado de Educação de Mato Grosso - SEDUC-MT, Cuiabá, MT Brazil
| | - Bao Lou
- Marine Fishery Institute of Zhejiang Province, Key Lab of Mariculture and Enhancement of Zhejiang Province, 316100 Zhoushan, Zhejiang Province People's Republic of China
| | - Marcelo de Bello Cioffi
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, Rodovia Washington Luís, km 235, São Carlos, SP 13565-905 Brazil
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12
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Getlekha N, Cioffi MDB, Maneechot N, Bertollo LAC, Supiwong W, Tanomtong A, Molina WF. Contrasting Evolutionary Paths Among Indo-Pacific Pomacentrus Species Promoted by Extensive Pericentric Inversions and Genome Organization of Repetitive Sequences. Zebrafish 2017; 15:45-54. [PMID: 29023226 DOI: 10.1089/zeb.2017.1484] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023] Open
Abstract
Pomacentrus (damselfishes) is one of the most characteristic groups of fishes in the Indo-Pacific coral reef. Its 77 described species exhibit a complex taxonomy with cryptic lineages across their extensive distribution. Periods of evolutionary divergences between them are very variable, and the cytogenetic events that followed their evolutionary diversification are largely unknown. In this respect, analyses of chromosomal divergence, within a phylogenetic perspective, are particularly informative regarding karyoevolutionary trends. As such, we conducted conventional cytogenetic and cytogenomic analyses in four Pomacentrus species (Pomacentrus similis, Pomacentrus auriventris, Pomacentrus moluccensis, and Pomacentrus cuneatus), through the mapping of repetitive DNA classes and transposable elements, including 18S rDNA, 5S rDNA, (CA)15, (GA)15, (CAA)10, Rex6, and U2 snDNA as markers. P. auriventris and P. similis, belonging to the Pomacentrus coelestis complex, have indistinguishable karyotypes (2n = 48; NF = 48), with a peculiar syntenic organization of ribosomal genes. On the other hand, P. moluccensis and P. cuneatus, belonging to another clade, exhibit very different karyotypes (2n = 48, NF = 86 and 92, respectively), with a large number of bi-armed chromosomes, where multiple pericentric inversions played a significant role in their karyotype organization. In this sense, different chromosomal pathways followed the phyletic diversification in the Pomacentrus genus, making possible the characterization of two well-contrasting species groups regarding their karyotype features. Despite this, pericentric inversions act as an effective postzygotic barrier in many organisms, which appear to be also the case for P. moluccensis and P. cuneatus; the extensive chromosomal similarities in the two species of P. coelestis complex suggest minor participation of chromosomal postzygotic barriers in the phyletic diversification of these species.
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Affiliation(s)
- Nuntaporn Getlekha
- 1 Department of Biology, Faculty of Science, Khon Kaen University , Khon Kaen, Thailand
| | - Marcelo de Bello Cioffi
- 2 Departamento de Genética e Evolução, Universidade Federal de São Carlos , São Paulo, Brazil
| | - Nuntiya Maneechot
- 1 Department of Biology, Faculty of Science, Khon Kaen University , Khon Kaen, Thailand
| | | | - Weerayuth Supiwong
- 3 Department of Fisheries, Faculty of Applied Science and Engineering, Khon Kaen University , Khon Kaen, Thailand
| | - Alongklod Tanomtong
- 1 Department of Biology, Faculty of Science, Khon Kaen University , Khon Kaen, Thailand .,4 Toxic Substances in Livestock and Aquatic Animals Research Group, KhonKaen University , Khon Kaen, Thailand
| | - Wagner Franco Molina
- 5 Departamento de Biologia Celular e Genética, Centro de Biociências, Universidade Federal do Rio Grande do Norte , Natal, Brazil
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13
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Supiwong W, Jiwyam W, Sreeputhorn K, Maneechot N, Bertollo LAC, Cioffi MB, Getlekha N, Tanomtong A. First report on classical and molecular cytogenetics of archerfish, Toxotes chatareus (Perciformes: Toxotidae). THE NUCLEUS 2017. [DOI: 10.1007/s13237-017-0216-5] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022] Open
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14
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Santos ARD, Usso MC, Gouveia JG, Araya-Jaime C, Frantine-Silva W, Giuliano-Caetano L, Foresti F, Dias AL. Chromosomal Mapping of Repetitive DNA Sequences in the Genus Bryconamericus (Characidae) and DNA Barcoding to Differentiate Populations. Zebrafish 2017; 14:261-271. [PMID: 28355106 DOI: 10.1089/zeb.2016.1380] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022] Open
Abstract
The mapping of repetitive DNA sites by fluorescence in situ hybridization has been widely used for karyotype studies in different species of fish, especially when dealing with related species or even genera presenting high chromosome variability. This study analyzed three populations of Bryconamericus, with diploid number preserved, but with different karyotype formulae. Bryconamericus ecai, from the Forquetinha river/RS, presented three new cytotypes, increasing the number of karyotype forms to seven in this population. Other two populations of Bryconamericus sp. from the Vermelho stream/PR and Cambuta river/PR exhibited interpopulation variation. The chromosome mapping of rDNA sites revealed unique markings among the three populations, showing inter- and intrapopulation variability located in the terminal region. The molecular analysis using DNA barcoding complementing the cytogenetic analysis also showed differentiation among the three populations. The U2 small nuclear DNA repetitive sequence exhibited conserved features, being located in the interstitial region of a single chromosome pair. This is the first report on its occurrence in the genus Bryconamericus. Data obtained revealed a karyotype variability already assigned to the genus, along with polymorphism of ribosomal sites, demonstrating that this group of fish can be undergoing a divergent evolutionary process, constituting a substantive model for studies of chromosomal evolution.
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Affiliation(s)
- Angélica Rossotti Dos Santos
- 1 Laboratório de Citogenética Animal, Departamento de Biologia Geral, Universidade Estadual de Londrina , Londrina, Brazil
| | - Mariana Campaner Usso
- 1 Laboratório de Citogenética Animal, Departamento de Biologia Geral, Universidade Estadual de Londrina , Londrina, Brazil
| | - Juceli Gonzalez Gouveia
- 1 Laboratório de Citogenética Animal, Departamento de Biologia Geral, Universidade Estadual de Londrina , Londrina, Brazil
| | - Cristian Araya-Jaime
- 2 Laboratório de Citogenética de Vertebrados, ICBM Facultad de Medicina, Universidad de Chile , Santiago, Chile .,3 Laboratório de Genética e Ecologia Animal, Departamento de Biologia Geral, Universidade Estadual de Londrina , Londrina, Brazil .,4 Departamento de Morfologia, Instituto de Biociências, Universidade Estadual Paulista , Botucatu, Brazil
| | - Wilson Frantine-Silva
- 3 Laboratório de Genética e Ecologia Animal, Departamento de Biologia Geral, Universidade Estadual de Londrina , Londrina, Brazil
| | - Lucia Giuliano-Caetano
- 1 Laboratório de Citogenética Animal, Departamento de Biologia Geral, Universidade Estadual de Londrina , Londrina, Brazil
| | - Fausto Foresti
- 4 Departamento de Morfologia, Instituto de Biociências, Universidade Estadual Paulista , Botucatu, Brazil
| | - Ana Lúcia Dias
- 1 Laboratório de Citogenética Animal, Departamento de Biologia Geral, Universidade Estadual de Londrina , Londrina, Brazil
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15
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Yano CF, Bertollo LAC, Rebordinos L, Merlo MA, Liehr T, Portela-Bens S, Cioffi MDB. Evolutionary Dynamics of rDNAs and U2 Small Nuclear DNAs in Triportheus (Characiformes, Triportheidae): High Variability and Particular Syntenic Organization. Zebrafish 2017; 14:146-154. [PMID: 28051362 DOI: 10.1089/zeb.2016.1351] [Citation(s) in RCA: 28] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/12/2022] Open
Abstract
Multigene families correspond to a group of genes tandemly repeated, showing enormous diversity in both number of units and genomic organization. In fishes, unlike rDNAs that have been well explored in cytogenetic studies, U2 small nuclear RNA (snRNA) genes are poorly investigated concerning their chromosomal localization. All Triportheus species (Characiformes, Triportheidae) studied so far carry a ZZ/ZW sex chromosomes system, where the W chromosome contains a huge 18S rDNA cistron. In some species the syntenic organization of rDNAs on autosomes was also verified. To explore this particular organization, we performed three-color-fluorescence in situ hybridization using 5S, 18S rDNA, and U2 snRNA genes as probes in eight Triportheus species. This work represents the first one analyzing the chromosomal distribution of U2 snRNA genes in genomes of Triportheidae. The variability in number of rDNA clusters, and the divergent syntenies for these three multigene families, put in evidence their evolutionary dynamism, revealing a much more complex organization of these genes than previously supposed for closely related species. Our study also provides additional data on the accumulation of repetitive sequences in the sex-specific chromosome. Besides, the chromosomal organization of U2 snDNAs among fish species is also reviewed.
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Affiliation(s)
- Cassia Fernanda Yano
- 1 Departamento de Genética e Evolução, Universidade Federal de São Carlos , São Carlos, Brazil
| | | | - Laureana Rebordinos
- 2 Laboratorio de Genética, Facultad de Ciencias del Mar y Ambientales, Universidad de Cádiz , Cádiz, Spain
| | - Manuel Alejandro Merlo
- 2 Laboratorio de Genética, Facultad de Ciencias del Mar y Ambientales, Universidad de Cádiz , Cádiz, Spain
| | - Thomas Liehr
- 3 Jena University Hospital, Friedrich Schiller University , Institute of Human Genetics, Jena, Germany
| | - Silvia Portela-Bens
- 2 Laboratorio de Genética, Facultad de Ciencias del Mar y Ambientales, Universidad de Cádiz , Cádiz, Spain
| | - Marcelo de Bello Cioffi
- 1 Departamento de Genética e Evolução, Universidade Federal de São Carlos , São Carlos, Brazil
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16
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Supiwong W, Saenjundaeng P, Maneechot N, Chooseangjaew S, Pinthong K, Tanomtong A. A Discovery of Nucleolar Organizer Regions (NORs) Polymorphism and Karyological Analysis of Crystal Eye Catfish, Hemibagrus wyckii (Siluriformes, Bagridae) in Thailand. CYTOLOGIA 2017. [DOI: 10.1508/cytologia.82.403] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/16/2022]
Affiliation(s)
- Weerayuth Supiwong
- Faculty of Applied Science and Engineering, Khon Kaen University, Nong Khai Campus
| | | | - Nuntiya Maneechot
- Department of Fundamental Science, Faculty of Science and Technology, Surindra Rajabhat University
| | - Supatcha Chooseangjaew
- Marine Shellfish Breeding Research Unit, Department of Marine Science, Faculty of Science and Fisheries Technology, Rajamangala University of Technology Srivijaya, Trang Campus
| | - Krit Pinthong
- Toxic Substances in Livestock and Aquatic Animals Research Group, Department of Biology, Faculty of Science, Khon Kaen University
| | - Alongklod Tanomtong
- Toxic Substances in Livestock and Aquatic Animals Research Group, Department of Biology, Faculty of Science, Khon Kaen University
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17
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Piscor D, Centofante L, Parise-Maltempi PP. Highly Similar Morphologies Between Chromosomes Bearing U2 snRNA Gene Clusters in the Group Astyanax Baird and Girard, 1854 (Characiformes, Characidae): An Evolutionary Approach in Species with 2n = 36, 46, 48, and 50. Zebrafish 2016; 13:565-570. [DOI: 10.1089/zeb.2016.1292] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022] Open
Affiliation(s)
- Diovani Piscor
- Laboratório de Citogenética, Departamento de Biologia, Instituto de Biociências, Universidade Estadual Paulista “Júlio de Mesquita Filho” (UNESP), Rio Claro, Brazil
| | - Liano Centofante
- Laboratório de Genética Animal, Departamento de Biologia e Zoologia, Instituto de Biociências, Universidade Federal de Mato Grosso (UFMT), Cuiabá, Brazil
| | - Patricia Pasquali Parise-Maltempi
- Laboratório de Citogenética, Departamento de Biologia, Instituto de Biociências, Universidade Estadual Paulista “Júlio de Mesquita Filho” (UNESP), Rio Claro, Brazil
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18
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Getlekha N, Cioffi MDB, Yano CF, Maneechot N, Bertollo LAC, Supiwong W, Tanomtong A, Molina WF. Chromosome mapping of repetitive DNAs in sergeant major fishes (Abudefdufinae, Pomacentridae): a general view on the chromosomal conservatism of the genus. Genetica 2016; 144:567-576. [PMID: 27660254 DOI: 10.1007/s10709-016-9925-y] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/09/2016] [Accepted: 09/17/2016] [Indexed: 12/01/2022]
Abstract
Species of the Abudefduf genus (sergeant-majors) are widely distributed in the Indian, Pacific and Atlantic oceans, with large schools inhabiting rocky coastal regions and coral reefs. This genus consists of twenty recognized species are of generalist habit, showing typical characteristics of colonizers. Some populations maintain gene flow between large oceanic areas, a condition that may influence their cytogenetic features. A number of species have been shown to be invaders and able to hybridize with local species. However, cytogenetic data in this genus are restricted to few species. In this way, the present study includes the chromosomal investigation, using conventional (Giemsa staining, Ag-NOR and C-banding) and molecular (in situ mapping of six different repetitive DNA classes) approaches in four Abudefduf species from different oceanic regions (A. bengalensis and A. sexfasciatus from the Indo-Pacific, A. vaigiensis from the Indian and A. saxatilis from the Atlantic oceans, respectively), to investigate the evolutionary events associated with the chromosomal diversification in this group. All species share a similar karyotype (2n = 48; NF = 52), except A. sexfasciatus (2n = 48; NF = 50), which possesses a characteristic pericentric inversion in the NOR-bearing chromosomal pair. Mapping of repetitive sequences suggests a chromosomal conservatism in this genus. The high karyotypic similarity between allopatric species of Abudefduf may be related to the success of natural viable hybrids among species with recent secondary contact.
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Affiliation(s)
- Nuntaporn Getlekha
- Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen, Thailand
| | - Marcelo de Bello Cioffi
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, São Carlos, São Paulo, Brazil
| | - Cassia Fernanda Yano
- Departamento de Genética e Evolução, Universidade Federal de São Carlos, São Carlos, São Paulo, Brazil
| | - Nuntiya Maneechot
- Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen, Thailand
| | | | - Weerayuth Supiwong
- Department of Fisheries, Faculty of Applied Science and Engineering, Khon Kaen University, Nong Khai Campus, Muang, Nong Khai, Thailand
| | - Alongklod Tanomtong
- Department of Biology, Faculty of Science, Khon Kaen University, Muang, Khon Kaen, Thailand.,Toxic Substances in Livestock and Aquatic Animals Research Group, Khon Kaen University, Muang, Khon Kaen, 40002, Thailand
| | - Wagner Franco Molina
- Departamento de Biologia Celular e Genética, Centro de Biociências, Universidade Federal do Rio Grande do Norte, Natal, RN, Brazil.
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19
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da Cunha MS, Reis VJC, Dergam JA. Closely Related Syntopic Cytotypes of Astyanax taeniatus (Jenyns, 1842) from the Upper Piranga River, Upper Doce Basin in Southeastern Brazil. Zebrafish 2016; 13:112-7. [DOI: 10.1089/zeb.2015.1163] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/22/2022] Open
Affiliation(s)
- Marina Souza da Cunha
- Laboratório de Sistemática Molecular–Beagle, Departamento de Biologia Animal, Universidade Federal de Viçosa, Viçosa, Minas Gerais State, Brazil
| | - Vinícius José Carvalho Reis
- Laboratório de Sistemática Molecular–Beagle, Departamento de Biologia Animal, Universidade Federal de Viçosa, Viçosa, Minas Gerais State, Brazil
| | - Jorge Abdala Dergam
- Laboratório de Sistemática Molecular–Beagle, Departamento de Biologia Animal, Universidade Federal de Viçosa, Viçosa, Minas Gerais State, Brazil
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20
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Carvalho NDM, Pinheiro VSS, Carmo EJ, Goll LG, Schneider CH, Gross MC. The Organization of Repetitive DNA in the Genomes of Amazonian Lizard Species in the Family Teiidae. Cytogenet Genome Res 2016; 147:161-8. [PMID: 26867142 DOI: 10.1159/000443714] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 11/05/2015] [Indexed: 11/19/2022] Open
Abstract
Repetitive DNA is the largest fraction of the eukaryote genome and comprises tandem and dispersed sequences. It presents variations in relation to its composition, number of copies, distribution, dynamics, and genome organization, and participates in the evolutionary diversification of different vertebrate species. Repetitive sequences are usually located in the heterochromatin of centromeric and telomeric regions of chromosomes, contributing to chromosomal structures. Therefore, the aim of this study was to physically map repetitive DNA sequences (5S rDNA, telomeric sequences, tropomyosin gene 1, and retroelements Rex1 and SINE) of mitotic chromosomes of Amazonian species of teiids (Ameiva ameiva, Cnemidophorus sp. 1, Kentropyx calcarata, Kentropyx pelviceps, and Tupinambis teguixin) to understand their genome organization and karyotype evolution. The mapping of repetitive sequences revealed a distinct pattern in Cnemidophorus sp. 1, whereas the other species showed all sequences interspersed in the heterochromatic region. Physical mapping of the tropomyosin 1 gene was performed for the first time in lizards and showed that in addition to being functional, this gene has a structural function similar to the mapped repetitive elements as it is located preferentially in centromeric regions and termini of chromosomes.
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Affiliation(s)
- Natalia D M Carvalho
- Laboratx00F3;rio de Citogenx00F4;mica Animal, Instituto de Cix00EA;ncias Biolx00F3;gicas, Universidade Federal do Amazonas, Manaus, Brazil
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21
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García-Souto D, Troncoso T, Pérez M, Pasantes JJ. Molecular Cytogenetic Analysis of the European Hake Merluccius merluccius (Merlucciidae, Gadiformes): U1 and U2 snRNA Gene Clusters Map to the Same Location. PLoS One 2015; 10:e0146150. [PMID: 26716701 PMCID: PMC4696792 DOI: 10.1371/journal.pone.0146150] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/20/2015] [Accepted: 12/13/2015] [Indexed: 01/25/2023] Open
Abstract
The European hake (Merluccius merluccius) is a highly valuable and intensely fished species in which a long-term alive stock has been established in captivity for aquaculture purposes. Due to their huge economic importance, genetic studies on hakes were mostly focused on phylogenetic and phylogeographic aspects; however chromosome numbers are still not described for any of the fifteen species in the genus Merluccius. In this work we report a chromosome number of 2n = 42 and a karyotype composed of three meta/submetacentric and 18 subtelo/telocentric chromosome pairs. Telomeric sequences appear exclusively at both ends of every single chromosome. Concerning rRNA genes, this species show a single 45S rDNA cluster at an intercalary location on the long arm of subtelocentric chromosome pair 12; the single 5S rDNA cluster is also intercalary to the long arm of chromosome pair 4. While U2 snRNA gene clusters map to a single subcentromeric position on chromosome pair 13, U1 snRNA gene clusters seem to appear on almost all chromosome pairs, but showing bigger clusters on pairs 5, 13, 16, 17 and 19. The brightest signals on pair 13 are coincident with the single U2 snRNA gene cluster signals. Therefore, the use of these probes allows the unequivocal identification of at least 7 of the chromosome pairs that compose the karyotype of Merluccius merluccius thus opening the way to integrate molecular genetics and cytological data on the study of the genome of this important species.
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Affiliation(s)
- Daniel García-Souto
- Departamento de Bioquímica, Xenética e Inmunoloxía, Universidade de Vigo, Vigo, Spain
| | - Tomás Troncoso
- Departamento de Bioquímica, Xenética e Inmunoloxía, Universidade de Vigo, Vigo, Spain
- Grupo de Acuicultura Marina, Centro Oceanográfico de Vigo, Instituto Español de Oceanografía, Vigo, Spain
| | - Montse Pérez
- Grupo de Acuicultura Marina, Centro Oceanográfico de Vigo, Instituto Español de Oceanografía, Vigo, Spain
| | - Juan José Pasantes
- Departamento de Bioquímica, Xenética e Inmunoloxía, Universidade de Vigo, Vigo, Spain
- * E-mail:
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22
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Silva DMZA, Utsunomia R, Pansonato-Alves JC, Oliveira C, Foresti F. Chromosomal Mapping of Repetitive DNA Sequences in Five Species of Astyanax (Characiformes, Characidae) Reveals Independent Location of U1 and U2 snRNA Sites and Association of U1 snRNA and 5S rDNA. Cytogenet Genome Res 2015; 146:144-152. [PMID: 26329975 DOI: 10.1159/000438813] [Citation(s) in RCA: 34] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 06/11/2015] [Indexed: 11/19/2022] Open
Abstract
Astyanax is a genus of Characidae fishes currently composed of 155 valid species. Previous cytogenetic studies revealed high chromosomal diversification among them, and several studies have been performed using traditional cytogenetic techniques to investigate karyotypes and chromosomal locations of 18S and 5S rDNA genes. However, only a few studies are currently available about other repetitive sequences. Here, the chromosomal location of small nuclear RNA genes, identified as U1 and U2 snRNA clusters, was established and compared to the distribution of 5S rDNA and histone clusters in 5 Astyanax species (A. paranae, A. fasciatus, A. bockmanni, A. altiparanae, and A. jordani) using FISH. The cytogenetic mapping of U1 and U2 snRNA demonstrated a conserved pattern in the number of sites per genome independent of the location in Astyanax species. The location of the U1 snRNA gene was frequently associated with 5S rDNA sequences, indicating a possible interaction between the distinct repetitive DNA families. Finally, comparisons involving the location of U1 and U2 snRNA clusters in the chromosomes of Astyanax species revealed a very diverse pattern, suggesting that many rearrangements have occurred during the diversification process of this group.
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Affiliation(s)
- Duilio M Z A Silva
- Departamento de Morfologia, Instituto de Biociências, Universidade Estadual Paulista, Botucatu, Brazil
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Utsunomia R, Scacchetti PC, Pansonato-Alves JC, Oliveira C, Foresti F. Comparative Chromosome Mapping of U2 snRNA and 5S rRNA Genes in Gymnotus Species (Gymnotiformes, Gymnotidae): Evolutionary Dynamics and Sex Chromosome Linkage in G. pantanal. Cytogenet Genome Res 2014; 142:286-92. [DOI: 10.1159/000362258] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Accepted: 01/31/2014] [Indexed: 11/19/2022] Open
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