scholarly journals Chromosomes and Repetitive DNAs: A Contribution to the Knowledge of the Fish Genome

2007 ◽  
pp. 421-453 ◽  
Author(s):  
Cesar Martins
Keyword(s):  
Fish Genome ◽  
Repetitive Dnas

Overview of the betta fish genome regarding species radiation, parental care, behavioral aggression, and pigmentation model relevant to humans

2021 ◽  
Vol 43 (2) ◽  
pp. 91-104
Author(s):  
Kornsorn Srikulnath ◽  
Worapong Singchat ◽  
Nararat Laopichienpong ◽  
Syed Farhan Ahmad ◽  
Maryam Jehangir ◽  
...  
Keyword(s):  
Parental Care ◽  
Fish Genome ◽  
Species Radiation ◽  
Behavioral Aggression

scholarly journals Karyotype and cytogenetic mapping of 9 classes of repetitive DNAs in the genome of the naked catfish Mystus bocourti (Siluriformes, Bagridae)

2013 ◽  
Vol 6 (1) ◽  
pp. 51 ◽  
Author(s):  
Weerayuth Supiwong ◽  
Thomas Liehr ◽  
Marcelo B Cioffi ◽  
Arunrat Chaveerach ◽  
Nadezda Kosyakova ◽  
...  
Keyword(s):  
Cytogenetic Mapping ◽  
Repetitive Dnas

scholarly journals Genetic and Epigenetic Changes Are Rapid Responses of the Genome to the Newly Synthesized Autotetraploid Carassius auratus

2021 ◽  
Vol 11 ◽  
Author(s):  
Chongqing Wang ◽  
Yuwei Zhou ◽  
Huan Qin ◽  
Chun Zhao ◽  
Li Yang ◽  
...  
Keyword(s):  
Dna Methylation ◽  
Carassius Auratus ◽  
Whole Genome Duplication ◽  
Genome Duplication ◽  
Enrichment Analysis ◽  
Full Length ◽  
Aflp Analysis ◽  
Whole Genome ◽  
Epigenetic Alterations ◽  
Fish Genome

Whole genome duplication events have occurred frequently during the course of vertebrate evolution. To better understand the influence of polyploidization on the fish genome, we herein used the autotetraploid Carassius auratus (4n = 200, RRRR) (4nRR) resulting from the whole genome duplication of Carassius auratus (2n = 100, RR) (RCC) to explore the genomic and epigenetic alterations after polyploidization. We subsequently performed analyses of full-length transcriptome dataset, amplified fragment length polymorphism (AFLP) and methylation sensitive amplification polymorphism (MSAP) on 4nRR and RCC. By matching the results of 4nRR and RCC isoforms with reference genome in full-length transcriptome dataset, 649 and 1,971 novel genes were found in the RCC and 4nRR full-length geneset, respectively. Compared to Carassius auratus and Megalobrama amblycephala, 4nRR presented 3,661 unexpressed genes and 2,743 expressed genes. Furthermore, GO enrichment analysis of expressed genes in 4nRR revealed that they were enriched in meiosis I, whereas KEGG enrichment analysis displayed that they were mainly enriched in proteasome. Using AFLP analysis, we noted that 32.61% of RCC fragments had disappeared, while 32.79% of new bands were uncovered in 4nRR. Concerning DNA methylation, 4nRR exhibited a lower level of global DNA methylation than RCC. Additionally, 60.31% of methylation patterns in 4nRR were altered compared to RCC. These observations indicated that transcriptome alterations, genomic changes and regulation of DNA methylation levels and patterns had occurred in the newly established autotetraploid genomes, suggesting that genetic and epigenetic alterations were influenced by autotetraploidization. In summary, this study provides valuable novel insights into vertebrate genome evolution and generates relevant information for fish breeding.

Genomic organization of repetitive DNAs in the cichlid fish Astronotus ocellatus

Genetica ◽  
2008 ◽  
Vol 136 (3) ◽  
pp. 461-469 ◽  
Author(s):  
Juliana Mazzuchelli ◽  
Cesar Martins
Keyword(s):  
Genomic Organization ◽  
Cichlid Fish ◽  
Repetitive Dnas ◽  
Astronotus Ocellatus

A rapid procedure for the isolation of C0t-1 DNA from plants

Genome ◽  
1997 ◽  
Vol 40 (1) ◽  
pp. 138-142 ◽  
Author(s):  
Michael S. Zwick ◽  
Robert E. Hanson ◽  
M. Nurul Islam-Faridi ◽  
David M. Stelly ◽  
Rod A. Wing ◽  
...  
Keyword(s):  
In Situ Hybridization ◽  
Repetitive Dna ◽  
Copy Number ◽  
Genomic Dna ◽  
Mammalian Species ◽  
Repetitive Dnas ◽  
Rapid Procedure ◽  
Dna Elements ◽  
Repetitive Dna Elements

In situ hybridization (ISH) for the detection of single- or low-copy sequences, particularly large DNA fragments cloned into YAC or BAC vectors, generally requires the suppression or "blocking" of highly-repetitive DNAs. C0t-1 DNA is enriched for repetitive DNA elements, high or moderate in copy number, and can therefore be used more effectively than total genomic DNA to prehybridize and competitively hybridize repetitive elements that would otherwise cause nonspecific hybridization. C0t-1 DNAs from several mammalian species are commercially available, however, none is currently available for plants to the best of our knowledge. We have developed a simple 1-day procedure to generate C0t-1 DNA without the use of specialized equipment.Key words: C0t-1 DNA, in situ hybridization, BACs, plants.

scholarly journals Contrasting the Chromosomal Organization of Repetitive DNAs in Two Gryllidae Crickets with Highly Divergent Karyotypes

PLoS ONE ◽  
2015 ◽  
Vol 10 (12) ◽  
pp. e0143540 ◽  
Author(s):  
Octavio M. Palacios-Gimenez ◽  
Carlos Roberto Carvalho ◽  
Fernanda Aparecida Ferrari Soares ◽  
Diogo C. Cabral-de-Mello
Keyword(s):  
Repetitive Dnas ◽  
Chromosomal Organization

Replication, integration and stable germ-line transmission of foreign sequences injected into early zebrafish embryos

Development ◽  
1988 ◽  
Vol 103 (2) ◽  
pp. 403-412 ◽  
Author(s):  
G.W. Stuart ◽  
J.V. McMurray ◽  
M. Westerfield
Keyword(s):  
Germ Line ◽  
Transmission Rate ◽  
Transgenic Fish ◽  
Early Embryo ◽  
Zebrafish Embryos ◽  
Fish Genome ◽  
Bacterial Plasmid ◽  
Foreign Dna ◽  
High Concentrations ◽  
F2 Progeny

To generate stable lines of transgenic fish, early zebrafish embryos were injected with high concentrations of a linear bacterial plasmid. After injection, the foreign DNA was converted into a high molecular weight form and then amplified approximately tenfold during the initial rapid cleavages characteristic of the early embryo prior to gastrulation. While most of this DNA was subsequently degraded during gastrulation, some of the foreign sequences survived the gastrula stage and could be found in most of the injected fish at 3 weeks of age. Only about 5% of fish analysed 4 months after the injection retained foreign DNA in their fins, usually at less than one copy per cell. One of these fish was also found to contain about 100 copies per cell of foreign DNA in a fraction of its germ cells. Approximately 20% of the F1 offspring from this germ-line-positive parent inherited the foreign DNA, whereas 50% of F2 progeny obtained from an identified F1 individual inherited these sequences. The 50% transmission rate in F2 progeny was as expected for a single, heterozygous genomic insert. These observations indicate that injected DNA can be integrated into the fish genome, that the resulting transgenic fish are mosaic and that some of these mosaic individuals give rise to stable lines of transgenic fish.

scholarly journals Evolution and diversity of transposable elements in fish genomes

2019 ◽  
Vol 9 (1) ◽  
Author(s):  
Feng Shao ◽  
Minjin Han ◽  
Zuogang Peng
Keyword(s):  
Species Diversity ◽  
Transposable Elements ◽  
Long Terminal Repeat ◽  
Genome Size ◽  
Fish Species ◽  
Significant Variation ◽  
Genomic Sequences ◽  
Fish Genome ◽  
Long Interspersed Nuclear Elements ◽  
Fish Species Diversity

Abstract Transposable elements (TEs) are genomic sequences that can move, multiply, and often form sizable fractions of vertebrate genomes. Fish belong to a unique group of vertebrates, since their karyotypes and genome sizes are more diverse and complex, with probably higher diversity and evolution specificity of TE. To investigate the characteristics of fish TEs, we compared the mobilomes of 39 species, and observed significant variation of TE content in fish (from 5% in pufferfish to 56% in zebrafish), along with a positive correlation between fish genome size and TE content. In different classification hierarchies, retrotransposons (class), long terminal repeat (order), as well as Helitron, Maverick, Kolobok, CMC, DIRS, P, I, L1, L2, and 5S (superfamily) were all positively correlated with fish genome size. Consistent with previous studies, our data suggested fish genomes to not always be dominated by DNA transposons; long interspersed nuclear elements are also prominent in many species. This study suggests CR1 distribution in fish genomes to be obviously regular, and provides new clues concerning important events in vertebrate evolution. Altogether, our results highlight the importance of TEs in the structure and evolution of fish genomes and suggest fish species diversity to parallel transposon content diversification.

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