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Mousavi SE, Grützner F, Patil JG. Enhanced mitotic arrest and chromosome resolution for cytogenetic analysis in the eastern mosquitofish, Gambusia holbrooki. Acta Histochem 2023; 125:152029. [PMID: 37062122 DOI: 10.1016/j.acthis.2023.152029] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/10/2023] [Revised: 04/11/2023] [Accepted: 04/13/2023] [Indexed: 04/18/2023]
Abstract
Maximising the number of cells arrested at metaphase and their resolution is fundamentally important for molecular cytogenetic investigations, particularly in fish, which typically yield low mitotic index and have highly condensed chromosomes. To overcome these limitations, fish were injected with a mitotic stimulator (the yeast, Saccharomyces cerevisiae) to improve the mitotic index, and the intercalating agent ethidium bromide to produce elongated chromosomes. Specifically, adults were injected with activated yeast and then Colcemid (0.025 µg/µl solution, 10 µl per 1 g of body weight) at 24-96 h post yeast injections, followed by chromosome preparations from multiple tissues. Results showed that gill tissue had the highest number of dividing cells at 72 h post yeast exposure with no significant (p > 0.05) differences between the sexes. Nonetheless, sex-specific differences in the mitotic index were observed in spleen, kidney, and liver, which may be attributed to sex-specific differences in immune responses. For elongation of mitotic chromosomes, individuals (both sexes) were first injected with activated yeast and after 48 h with ethidium bromide (2 or 4 µg/ml) and Colcemid (0.05 µg/µl solution, 10 µl per 1 g of body weight). Following which, animals were sampled at three time points (1, 4 and 8 h) for chromosome preparations. The results show that the optimum elongation of metaphase chromosomes of males and females was achieved by using 2 µg/ml and 4 µg/ml, respectively, for 1 h. Interestingly, the average mitotic chromosome length (μm) of males and females post-ethidium bromide exposure was significantly different (p < 0.05) for both concentrations, except at 1 h exposure for 2 µg/ml EtBr. Such differences can be attributed to overall chromosomal condensation differences between sexes. Regardless, the increased mitotic index and chromosome resolution could benefit cytogenetic studies in other fish species.
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Affiliation(s)
- Seyed Ehsan Mousavi
- Laboratory of Molecular Biology, Institute for Marine and Antarctic Studies, University of Tasmania, Taroona, TAS 7053, Australia; School of Medicine, University of Tasmania, Hobart, TAS 7000, Australia.
| | - Frank Grützner
- School of Biological Sciences, University of Adelaide, Adelaide, SA 5005, Australia
| | - Jawahar G Patil
- Laboratory of Molecular Biology, Institute for Marine and Antarctic Studies, University of Tasmania, Taroona, TAS 7053, Australia
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Biltueva LS, Prokopov DY, Romanenko SA, Interesova EA, Schartl M, Trifonov VA. Chromosome Distribution of Highly Conserved Tandemly Arranged Repetitive DNAs in the Siberian Sturgeon ( Acipenser baerii). Genes (Basel) 2020; 11:E1375. [PMID: 33233736 PMCID: PMC7699875 DOI: 10.3390/genes11111375] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/16/2020] [Revised: 11/13/2020] [Accepted: 11/16/2020] [Indexed: 01/05/2023] Open
Abstract
Polyploid genomes present a challenge for cytogenetic and genomic studies, due to the high number of similar size chromosomes and the simultaneous presence of hardly distinguishable paralogous elements. The karyotype of the Siberian sturgeon (Acipenser baerii) contains around 250 chromosomes and is remarkable for the presence of paralogs from two rounds of whole-genome duplications (WGD). In this study, we applied the sterlet-derived acipenserid satDNA-based whole chromosome-specific probes to analyze the Siberian sturgeon karyotype. We demonstrate that the last genome duplication event in the Siberian sturgeon was accompanied by the simultaneous expansion of several repetitive DNA families. Some of the repetitive probes serve as good cytogenetic markers distinguishing paralogous chromosomes and detecting ancestral syntenic regions, which underwent fusions and fissions. The tendency of minisatellite specificity for chromosome size groups previously observed in the sterlet genome is also visible in the Siberian sturgeon. We provide an initial physical chromosome map of the Siberian sturgeon genome supported by molecular markers. The application of these data will facilitate genomic studies in other recent polyploid sturgeon species.
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Affiliation(s)
- Larisa S. Biltueva
- Institute of Molecular and Cellular Biology SB RAS, Lavrentiev Ave., 8/2, 630090 Novosibirsk, Russia; (L.S.B.); (S.A.R.); (V.A.T.)
| | - Dmitry Yu. Prokopov
- Institute of Molecular and Cellular Biology SB RAS, Lavrentiev Ave., 8/2, 630090 Novosibirsk, Russia; (L.S.B.); (S.A.R.); (V.A.T.)
| | - Svetlana A. Romanenko
- Institute of Molecular and Cellular Biology SB RAS, Lavrentiev Ave., 8/2, 630090 Novosibirsk, Russia; (L.S.B.); (S.A.R.); (V.A.T.)
| | - Elena A. Interesova
- Department of Ichthyology and Hydrobiology, Tomsk State University, Lenin Ave, 36, 634050 Tomsk, Russia;
| | - Manfred Schartl
- Developmental Biochemistry, University of Wuerzburg, Biocenter, Am Hubland, 97074 Wuerzburg, Germany;
- Xiphophorus Genetic Stock Center, Texas State University, 601 University Drive, 419 Centennial Hall, San Marcos, TX 78666-4616, USA
| | - Vladimir A. Trifonov
- Institute of Molecular and Cellular Biology SB RAS, Lavrentiev Ave., 8/2, 630090 Novosibirsk, Russia; (L.S.B.); (S.A.R.); (V.A.T.)
- Novosibirsk State University, Novosibirsk, Pirogova, 2, 630090 Novosibirsk, Russia
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Rodríguez FR, de la Herrán R, Navajas-Pérez R, Cano-Roldán B, Sola-Campoy PJ, García-Zea JA, Rejón CR. Centromeric Satellite DNA in Flatfish (Order Pleuronectiformes) and Its Relation to Speciation Processes. J Hered 2018; 108:217-222. [PMID: 28173078 DOI: 10.1093/jhered/esw076] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2016] [Accepted: 10/24/2016] [Indexed: 12/22/2022] Open
Abstract
Two new centromeric satellite DNAs in flatfish (Order Pleuronectiformes) have been characterized. The SacI-family from Hippoglossus hippoglossus, restricted to this species, had a monomeric size of 334 base pair (bp) and was located in most of the centromeres of its karyotype. The PvuII-family, with a monomeric size of 177 bp, was initially isolated from the genome of Solea senegalensis, and fluorescent in situ hybridization (FISH) localized the repeat to centromeres of most of the chromosomes. This family could only be amplified in 2 other species of the genus Solea (Solea solea and Solea lascaris). Molecular features and chromosomal location indicated a possible structural and/or functional role of these sequence repeats. The presence of species-specific satellite-DNA families in the centromeres and their possible role in the speciation processes in this group of fishes is discussed.
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Affiliation(s)
- Francisca Robles Rodríguez
- From the Departamento de Genética, Facultad de Ciencias, Universidad de Granada, Avda. Fuentenueva s/n, 18071 Granada, Spain
| | - Roberto de la Herrán
- From the Departamento de Genética, Facultad de Ciencias, Universidad de Granada, Avda. Fuentenueva s/n, 18071 Granada, Spain
| | - Rafael Navajas-Pérez
- From the Departamento de Genética, Facultad de Ciencias, Universidad de Granada, Avda. Fuentenueva s/n, 18071 Granada, Spain
| | - Belén Cano-Roldán
- From the Departamento de Genética, Facultad de Ciencias, Universidad de Granada, Avda. Fuentenueva s/n, 18071 Granada, Spain
| | - Pedro Juan Sola-Campoy
- From the Departamento de Genética, Facultad de Ciencias, Universidad de Granada, Avda. Fuentenueva s/n, 18071 Granada, Spain
| | - Jerson Alexander García-Zea
- From the Departamento de Genética, Facultad de Ciencias, Universidad de Granada, Avda. Fuentenueva s/n, 18071 Granada, Spain
| | - Carmelo Ruiz Rejón
- From the Departamento de Genética, Facultad de Ciencias, Universidad de Granada, Avda. Fuentenueva s/n, 18071 Granada, Spain
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Liu Y, Chen Y, Gong Q, Lai J, Du J, Deng X. Paternity assignment in the polyploid Acipenser dabryanus based on a novel microsatellite marker system. PLoS One 2017; 12:e0185280. [PMID: 28953941 PMCID: PMC5617196 DOI: 10.1371/journal.pone.0185280] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/08/2017] [Accepted: 09/08/2017] [Indexed: 11/25/2022] Open
Abstract
Acipenser dabryanus is listed as a Critical Endangered species in the IUCN Red List and the first class protected animals in China. Fortunately, A. dabryanus specimens are being successfully bred in captivity for conservation. However, for effective ex situ conservation, we should be aware of the genetic diversity and the degree of relatedness of the individuals selected for breeding. In this study, we aimed at the development of novel and reliable microsatellites used for the genetic study of A. dabryanus. A total of 14,321 simple sequence repeats (SSRs) were detected by transcriptome sequencing and screening. We selected 20 novel and polymorphic microsatellites (non-dinucleotide) with good repeatability from the 100 tested loci for a subsequent genetic and paternity study. A set of captive broodstock (F1 stock, n = 43) and their offspring (F2 stock, n = 96) were used to examine the efficiency of the 20 SSRs for assigning parentage to offspring, with an allocation success of 91.7%. We also found that only a few families predominantly contributed to the progeny produced by the 43 breeders. In addition, mitochondrial DNA data showed that the captive broodstock (F1 individuals) had an excellent probability of the same lineage, implying that a high level of inbreeding may have occurred in these individuals. Our research provides useful information on genetic diversity and reproductive pattern of A. dabryanus, and the 20 SSRs developed in this study can be applied to the future breeding program to avoid inbreeding for this stock or other related species of Acipenseriformes.
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Affiliation(s)
- Ya Liu
- The Fishery Institute of the Sichuan Academy of Agricultural Sciences, Chengdu, China
| | - Yeyu Chen
- The Fishery Institute of the Sichuan Academy of Agricultural Sciences, Chengdu, China
| | - Quan Gong
- The Fishery Institute of the Sichuan Academy of Agricultural Sciences, Chengdu, China
| | - Jiansheng Lai
- The Fishery Institute of the Sichuan Academy of Agricultural Sciences, Chengdu, China
| | - Jun Du
- The Fishery Institute of the Sichuan Academy of Agricultural Sciences, Chengdu, China
- * E-mail: (XCD); (JD)
| | - Xiaochuan Deng
- The Fishery Institute of the Sichuan Academy of Agricultural Sciences, Chengdu, China
- * E-mail: (XCD); (JD)
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Panagiotopoulou H, Austin JD, Zalewska K, Gonciarz M, Czarnogórska K, Gawor J, Weglenski P, Popovic D. Microsatellite Mutation Rate in Atlantic Sturgeon (Acipenser oxyrinchus). J Hered 2017; 108:686-692. [PMID: 28821182 DOI: 10.1093/jhered/esx057] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2017] [Accepted: 07/02/2017] [Indexed: 11/14/2022] Open
Abstract
Understanding mutation rates can greatly extend the utility of population and conservation genetic analyses. Herein, we present an estimate of genome-wide microsatellite mutation rate in Atlantic sturgeon (Acipenser oxyrinchus) based on parent-offspring transmission patterns. We screened 307 individuals for parentage and mutation-rate analysis applying 43 variable markers. Out of 13228 allele transfers, 11 mutations were detected, producing a mutation rate of 8.3 × 10-4 per locus per generation (95% confidence interval: 1.48 × 10-3, 4.15 × 10-4). Single-step mutations predominated and there were trends toward mutations in loci with greater polymorphism and allele length. Two of the detected mutations were most probably cluster mutations, being identified in 12 and 28 sibs, respectively. Finally, we observed evidences of polyploidy based on the sporadic presence of 3 or 4 alleles per locus in the genotyped individuals, supporting previous reports of incomplete diploidization in Atlantic sturgeon.
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Affiliation(s)
- Hanna Panagiotopoulou
- Museum and Institute of Zoology, Polish Academy of Sciences, Warsaw, Poland; Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland; Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL 32611; Program in Fisheries and Aquatic Sciences, School of Forest Resources and Conservation, University of Florida, Gainesville, FL 32611; Institute of Genetics and Biotechnology, Department of Biology, University of Warsaw, Warsaw, Poland; University of Newcastle, Callaghan, Australia; Centre of New Technologies, University of Warsaw, Warsaw, Poland
| | - James D Austin
- Museum and Institute of Zoology, Polish Academy of Sciences, Warsaw, Poland; Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland; Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL 32611; Program in Fisheries and Aquatic Sciences, School of Forest Resources and Conservation, University of Florida, Gainesville, FL 32611; Institute of Genetics and Biotechnology, Department of Biology, University of Warsaw, Warsaw, Poland; University of Newcastle, Callaghan, Australia; Centre of New Technologies, University of Warsaw, Warsaw, Poland
| | - Katarzyna Zalewska
- Museum and Institute of Zoology, Polish Academy of Sciences, Warsaw, Poland; Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland; Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL 32611; Program in Fisheries and Aquatic Sciences, School of Forest Resources and Conservation, University of Florida, Gainesville, FL 32611; Institute of Genetics and Biotechnology, Department of Biology, University of Warsaw, Warsaw, Poland; University of Newcastle, Callaghan, Australia; Centre of New Technologies, University of Warsaw, Warsaw, Poland
| | - Magdalena Gonciarz
- Museum and Institute of Zoology, Polish Academy of Sciences, Warsaw, Poland; Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland; Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL 32611; Program in Fisheries and Aquatic Sciences, School of Forest Resources and Conservation, University of Florida, Gainesville, FL 32611; Institute of Genetics and Biotechnology, Department of Biology, University of Warsaw, Warsaw, Poland; University of Newcastle, Callaghan, Australia; Centre of New Technologies, University of Warsaw, Warsaw, Poland
| | - Kinga Czarnogórska
- Museum and Institute of Zoology, Polish Academy of Sciences, Warsaw, Poland; Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland; Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL 32611; Program in Fisheries and Aquatic Sciences, School of Forest Resources and Conservation, University of Florida, Gainesville, FL 32611; Institute of Genetics and Biotechnology, Department of Biology, University of Warsaw, Warsaw, Poland; University of Newcastle, Callaghan, Australia; Centre of New Technologies, University of Warsaw, Warsaw, Poland
| | - Jan Gawor
- Museum and Institute of Zoology, Polish Academy of Sciences, Warsaw, Poland; Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland; Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL 32611; Program in Fisheries and Aquatic Sciences, School of Forest Resources and Conservation, University of Florida, Gainesville, FL 32611; Institute of Genetics and Biotechnology, Department of Biology, University of Warsaw, Warsaw, Poland; University of Newcastle, Callaghan, Australia; Centre of New Technologies, University of Warsaw, Warsaw, Poland
| | - Piotr Weglenski
- Museum and Institute of Zoology, Polish Academy of Sciences, Warsaw, Poland; Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland; Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL 32611; Program in Fisheries and Aquatic Sciences, School of Forest Resources and Conservation, University of Florida, Gainesville, FL 32611; Institute of Genetics and Biotechnology, Department of Biology, University of Warsaw, Warsaw, Poland; University of Newcastle, Callaghan, Australia; Centre of New Technologies, University of Warsaw, Warsaw, Poland
| | - Danijela Popovic
- Museum and Institute of Zoology, Polish Academy of Sciences, Warsaw, Poland; Institute of Biochemistry and Biophysics, Polish Academy of Sciences, Warsaw, Poland; Department of Wildlife Ecology and Conservation, University of Florida, Gainesville, FL 32611; Program in Fisheries and Aquatic Sciences, School of Forest Resources and Conservation, University of Florida, Gainesville, FL 32611; Institute of Genetics and Biotechnology, Department of Biology, University of Warsaw, Warsaw, Poland; University of Newcastle, Callaghan, Australia; Centre of New Technologies, University of Warsaw, Warsaw, Poland
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Romanenko SA, Biltueva LS, Serdyukova NA, Kulemzina AI, Beklemisheva VR, Gladkikh OL, Lemskaya NA, Interesova EA, Korentovich MA, Vorobieva NV, Graphodatsky AS, Trifonov VA. Segmental paleotetraploidy revealed in sterlet (Acipenser ruthenus) genome by chromosome painting. Mol Cytogenet 2015; 8:90. [PMID: 26587056 PMCID: PMC4652396 DOI: 10.1186/s13039-015-0194-8] [Citation(s) in RCA: 39] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2015] [Accepted: 11/07/2015] [Indexed: 11/21/2022] Open
Abstract
Background Acipenseriformes take a basal position among Actinopteri and demonstrate a striking ploidy variation among species. The sterlet (Acipenser ruthenus, Linnaeus, 1758; ARUT) is a diploid 120-chromosomal sturgeon distributed in Eurasian rivers from Danube to Enisey. Despite a high commercial value and a rapid population decline in the wild, many genomic characteristics of sterlet (as well as many other sturgeon species) have not been studied. Results Cell lines from different tissues of 12 sterlet specimens from Siberian populations were established following an optimized protocol. Conventional cytogenetic studies supplemented with molecular cytogenetic investigations on obtained fibroblast cell lines allowed a detailed description of sterlet karyotype and a precise localization of 18S/28S and 5S ribosomal clusters. Localization of sturgeon specific HindIII repetitive elements revealed an increased concentration in the pericentromeric region of the acrocentric ARUT14, while the total sterlet repetitive DNA fraction (C0t30) produced bright signals on subtelomeric segments of small chromosomal elements. Chromosome and region specific probes ARUT1p, 5, 6, 7, 8 as well as 14 anonymous small sized chromosomes (probes A-N) generated by microdissection were applied in chromosome painting experiments. According to hybridization patterns all painting probes were classified into two major groups: the first group (ARUT5, 6, 8 as well as microchromosome specific probes C, E, F, G, H, and I) painted only a single region each on sterlet metaphases, while probes of the second group (ARUT1p, 7 as well as microchromosome derived probes A, B, D, J, K, M, and N) marked two genomic segments each on different chromosomes. Similar results were obtained on male and female metaphases. Conclusions The sterlet genome represents a complex mosaic structure and consists of diploid and tetraploid chromosome segments. This may be regarded as a transition stage from paleotetraploid (functional diploid) to diploid genome condition. Molecular cytogenetic and genomic studies of other 120- and 240-chromosomal sturgeons are needed to reconstruct genome evolution of this vertebrate group.
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Affiliation(s)
- Svetlana A Romanenko
- Institute of Molecular and Cellular Biology SB RAS, Novosibirsk, Russia ; Novosibirsk State University, Novosibirsk, Russia
| | - Larisa S Biltueva
- Institute of Molecular and Cellular Biology SB RAS, Novosibirsk, Russia
| | | | | | | | - Olga L Gladkikh
- Institute of Molecular and Cellular Biology SB RAS, Novosibirsk, Russia
| | | | - Elena A Interesova
- Novosibirsk Branch of the Federal State Budgetary Scientific Institution "State Scientific-and-Production Centre for Fisheries (Gosrybcenter)", Novosibirsk, Russia ; Tomsk State University, Tomsk, Russia
| | - Marina A Korentovich
- Federal State Budgetary Scientific Institution "State Scientific-and-Production Centre for Fisheries (Gosrybcenter)", Tyumen, Russia
| | - Nadezhda V Vorobieva
- Institute of Molecular and Cellular Biology SB RAS, Novosibirsk, Russia ; Novosibirsk State University, Novosibirsk, Russia
| | - Alexander S Graphodatsky
- Institute of Molecular and Cellular Biology SB RAS, Novosibirsk, Russia ; Novosibirsk State University, Novosibirsk, Russia
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Yuan L, Zhang X, Li L, Jiang H, Chen J. High-throughput sequencing of microRNA transcriptome and expression assay in the sturgeon, Acipenser schrenckii. PLoS One 2014; 9:e115251. [PMID: 25506840 PMCID: PMC4266654 DOI: 10.1371/journal.pone.0115251] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2014] [Accepted: 11/20/2014] [Indexed: 12/19/2022] Open
Abstract
Sturgeons are considered as living fossils and have very high evolutionary, economical and conservation values. The multiploidy of sturgeon that has been caused by chromosome duplication may lead to the emergence of new microRNAs (miRNAs) involved in the ploidy and physiological processes. In the present study, we performed the first sturgeon miRNAs analysis by RNA-seq high-throughput sequencing combined with expression assay of microarray and real-time PCR, and aimed to discover the sturgeon-specific miRNAs, confirm the expressed pattern of miRNAs and illustrate the potential role of miRNAs-targets on sturgeon biological processes. A total of 103 miRNAs were identified, including 58 miRNAs with strongly detected signals (signal >500 and P≤0.01), which were detected by microarray. Real-time PCR assay supported the expression pattern obtained by microarray. Moreover, co-expression of 21 miRNAs in all five tissues and tissue-specific expression of 16 miRNAs implied the crucial and particular function of them in sturgeon physiological processes. Target gene prediction, especially the enriched functional gene groups (369 GO terms) and pathways (37 KEGG) regulated by 58 miRNAs (P<0.05), illustrated the interaction of miRNAs and putative mRNAs, and also the potential mechanism involved in these biological processes. Our new findings of sturgeon miRNAs expand the public database of transcriptome information for this species, contribute to our understanding of sturgeon biology, and also provide invaluable data that may be applied in sturgeon breeding.
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Affiliation(s)
- Lihong Yuan
- Guangdong Public Laboratory of Wild Animal Conservation and Utilization, Guangdong Entomological Institute/South China Institute of Endangered Animals, Guangzhou, China
| | - Xiujuan Zhang
- Guangdong Public Laboratory of Wild Animal Conservation and Utilization, Guangdong Entomological Institute/South China Institute of Endangered Animals, Guangzhou, China
| | - Linmiao Li
- Guangdong Public Laboratory of Wild Animal Conservation and Utilization, Guangdong Entomological Institute/South China Institute of Endangered Animals, Guangzhou, China
| | - Haiying Jiang
- Guangdong Public Laboratory of Wild Animal Conservation and Utilization, Guangdong Entomological Institute/South China Institute of Endangered Animals, Guangzhou, China
| | - Jinping Chen
- Guangdong Public Laboratory of Wild Animal Conservation and Utilization, Guangdong Entomological Institute/South China Institute of Endangered Animals, Guangzhou, China
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Transcriptome sequencing and de novo annotation of the critically endangered Adriatic sturgeon. BMC Genomics 2013; 14:407. [PMID: 23773438 PMCID: PMC3691660 DOI: 10.1186/1471-2164-14-407] [Citation(s) in RCA: 55] [Impact Index Per Article: 5.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/21/2013] [Accepted: 06/04/2013] [Indexed: 12/14/2022] Open
Abstract
Background Sturgeons are a group of Condrostean fish with very high evolutionary, economical and conservation interest. The eggs of these living fossils represent one of the most high prized foods of animal origin. The intense fishing pressure on wild stocks to harvest caviar has caused in the last decades a dramatic decline of their distribution and abundance leading the International Union for Conservation of Nature to list them as the more endangered group of species. As a direct consequence, world-wide efforts have been made to develop sturgeon aquaculture programmes for caviar production. In this context, the characterization of the genes involved in sex determination could provide relevant information for the selective farming of the more profitable females. Results The 454 sequencing of two cDNA libraries from the gonads and brain of one male and one female full-sib A. naccarii, yielded 182,066 and 167,776 reads respectively, which, after strict quality control, were iterative assembled into more than 55,000 high quality ESTs. The average per-base coverage reached by assembling the two libraries was 4X. The multi-step annotation process resulted in 16% successfully annotated sequences with GO terms. We screened the transcriptome for 32 sex-related genes and highlighted 7 genes that are potentially specifically expressed, 5 in male and 2 in females, at the first life stage at which sex is histologically identifiable. In addition we identified 21,791 putative EST-linked SNPs and 5,295 SSRs. Conclusions This study represents the first large massive release of sturgeon transcriptome information that we organized into the public database AnaccariiBase, which is freely available at http://compgen.bio.unipd.it/anaccariibase/. This transcriptomic data represents an important source of information for further studies on sturgeon species. The hundreds of putative EST-linked molecular makers discovered in this study will be invaluable for sturgeon reintroduction and breeding programs.
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Havelka M, Kašpar V, Hulák M, Flajšhans M. Sturgeon genetics and cytogenetics: a review related to ploidy levels and interspecific hybridization. FOLIA ZOOLOGICA 2011. [DOI: 10.25225/fozo.v60.i2.a3.2011] [Citation(s) in RCA: 47] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/03/2022]
Affiliation(s)
- Miloš Havelka
- University of South Bohemia in České Budějovice, Faculty of Fisheries and Protection of Waters, South Bohemian Research Center of Aquaculture and Biodiversity of Hydrocenoses and Research Institute of Fish Culture and Hydrobiology, Zátiší 728/II, 389 25 Vodňany, Czech Republic
| | - Vojtěch Kašpar
- University of South Bohemia in České Budějovice, Faculty of Fisheries and Protection of Waters, South Bohemian Research Center of Aquaculture and Biodiversity of Hydrocenoses and Research Institute of Fish Culture and Hydrobiology, Zátiší 728/II, 389 25 Vodňany, Czech Republic
| | - Martin Hulák
- University of South Bohemia in České Budějovice, Faculty of Fisheries and Protection of Waters, South Bohemian Research Center of Aquaculture and Biodiversity of Hydrocenoses and Research Institute of Fish Culture and Hydrobiology, Zátiší 728/II, 389 25 Vodňany, Czech Republic
| | - Martin Flajšhans
- University of South Bohemia in České Budějovice, Faculty of Fisheries and Protection of Waters, South Bohemian Research Center of Aquaculture and Biodiversity of Hydrocenoses and Research Institute of Fish Culture and Hydrobiology, Zátiší 728/II, 389 25 Vodňany, Czech Republic
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Vishnyakova KS, Mugue NS, Zelenina DA, Mikodina EV, Kovaleva OA, Madan GV, Yegorov YE. Cell culture and karyotype of Sakhalin sturgeon Acipenser mikadoi. BIOCHEMISTRY MOSCOW SUPPLEMENT SERIES A-MEMBRANE AND CELL BIOLOGY 2009. [DOI: 10.1134/s1990747809010061] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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Fontana F, Congiu L, Mudrak VA, Quattro JM, Smith TIJ, Ware K, Doroshov SI. Evidence of hexaploid karyotype in shortnose sturgeon. Genome 2008; 51:113-9. [PMID: 18356945 DOI: 10.1139/g07-112] [Citation(s) in RCA: 55] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022]
Abstract
A karyotype analysis by several staining techniques was carried out on triplicate samples of the shortnose sturgeon, Acipenser brevirostrum. The chromosome number was found to be 2n = 372 +/- 6. A representative karyotype of 374 chromosomes was composed of 178 metacentrics/submetacentrics and 196 telocentrics/acrocentrics and microchromosomes. The signals of fluorescent in situ hybridization (FISH) with a HindIII satellite DNA probe were visible on 14 chromosomes. The signals obtained with a PstI satellite DNA probe appeared on 12 chromosomes. The FISH with a 5S rDNA probe revealed fluorescent signals on 6 chromosomes. These last results, compared with 2 signals in species with about 120 chromosomes and 4 in species with 240, support the hypothesis that A. brevirostrum is a hexaploid species, probably of hybrid origin. Based on these results, we propose a model explaining speciation events occurring in sturgeons by hybridization, genome duplication, and diploidization.
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Affiliation(s)
- Francesco Fontana
- Dipartimento di Biologia ed Evoluzione, Universita di Ferrara, Via L. Borsari, 46, 44100 Ferrara, Italy.
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