Catfish

Liu, Zhanjiang

doi:10.1007/978-3-540-73837-4_3

Cited by 6 publications

(2 citation statements)

References 82 publications

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“…The availability of these whole genome sequences lends great opportunities for comparative genome analysis. Recently, major genomic resources have been developed from a number of fish species such as Atlantic salmon ( Salmo salar ) [ 7 - 9 ], rainbow trout ( Oncorhynchus mykiss ) [ 10 , 11 ], tilapia [ 12 , 13 ], gilthead sea bream ( Sparus auratus ) [ 14 - 17 ], European sea bass ( Dicentrarchus labrax ) [ 18 , 19 ], and channel catfish ( Ictalurus punctatus ) (for a review, see [ 20 , 21 ]).…”

Section: Introductionmentioning

confidence: 99%

Comparative analysis of catfish BAC end sequences with the zebrafish genome

et al. 2009

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BackgroundComparative mapping is a powerful tool to transfer genomic information from sequenced genomes to closely related species for which whole genome sequence data are not yet available. However, such an approach is still very limited in catfish, the most important aquaculture species in the United States. This project was initiated to generate additional BAC end sequences and demonstrate their applications in comparative mapping in catfish.ResultsWe reported the generation of 43,000 BAC end sequences and their applications for comparative genome analysis in catfish. Using these and the additional 20,000 existing BAC end sequences as a resource along with linkage mapping and existing physical map, conserved syntenic regions were identified between the catfish and zebrafish genomes. A total of 10,943 catfish BAC end sequences (17.3%) had significant BLAST hits to the zebrafish genome (cutoff value ≤ e-5), of which 3,221 were unique gene hits, providing a platform for comparative mapping based on locations of these genes in catfish and zebrafish. Genetic linkage mapping of microsatellites associated with contigs allowed identification of large conserved genomic segments and construction of super scaffolds.ConclusionBAC end sequences and their associated polymorphic markers are great resources for comparative genome analysis in catfish. Highly conserved chromosomal regions were identified to exist between catfish and zebrafish. However, it appears that the level of conservation at local genomic regions are high while a high level of chromosomal shuffling and rearrangements exist between catfish and zebrafish genomes. Orthologous regions established through comparative analysis should facilitate both structural and functional genome analysis in catfish.

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Section: Introductionmentioning

confidence: 99%

Comparative analysis of catfish BAC end sequences with the zebrafish genome

et al. 2009

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“…The fish are more adaptable and possess all the characteristics necessary for aquaculture including relatively high fecundity, ability for artificial spawning, adaptability to earthen ponds for culture, high tolerance to low dissolved oxygen, relatively high resistance against infectious diseases, and relatively high feed conversion efficiency (Jin et al 2016). Catfish is one of the primary aquaculture species in the United States and its global importance is increasing in several countries in Asia including Indonesia (Liu 2008;Liu, 2011).…”

Section: Introductionmentioning

confidence: 99%

Genetic diversity of indigenous catfish from Indonesia based on mitochondrial Cytochrome Oxidase Subunit II gene

et al. 2021

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Abstract. Budiariati V, Susmiati T, Waroh S, Putri RCA, Widayanti R. 2021. Genetic diversity of indigenous catfish from Indonesia based on mitochondrial Cytochrome Oxidase Subunit II gene. Biodiversitas 22: 593-600. Catfish is one of the most demanding fish in Indonesia and served in a variety of traditional culinary. Due to their identical morphology and close relation between species in the order of Siluriformes, it is quite tricky to distinguish the species. This can be a threat to develop catfish production in Indonesia since there is a wide variety of catfish species in this mega biodiversity country. The study aimed to analyze the genetic diversity of Indonesian indigenous catfish especially those known as Baung fish by local people based on COII gene. The study also aimed to determine the phylogenetic relationship between the samples and compare them with the GenBank data. A total of 24 samples used in this study from 8 different rivers from 3 different islands and two samples were collected from coastal areas. The study results showed that there is genetic diversity of the Indonesian indigenous catfish based on COII gene. The sequences among 24 samples showed that from 691 nucleotides of COII gene, there were very subtle nucleotides differences of samples that originated from Bojonegoro, Magelang, and samples collected from Baru Beach, Yogyakarta. Based on COII amino acid sequences, 6 polymorphic amino acid sites were on-site number 64, 115, 123, 129, 144, and 165. The samples encoded LLB1 and LPB1 from Baru Beach, Yogyakarta, showed highest different amino acids in the six sites. Samples from the river of Central Java, Sumatra, and Kalimantan belonged to Bagridae family and consist of two different species Hemibagrus sp. and Mystus sp while samples from East Java belonged to Pangasiidae family. The Samples from coastal belonged to Ariidae family.

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