Channel catfish BAC-end sequences for marker development and assessment of syntenic conservation with other fish species.

Abstract:

:In the present study, 25 195 BAC ends for channel catfish (Ictalurus punctatus) were sequenced, generating 20 366 clean BAC-end sequences (BES), with an average read length of 557 bp after trimming. A total of 11 414 601 bp were generated, representing approximately 1.2% of the catfish genome. Based on this survey, the catfish genome was found to be highly AT-rich, with 60.7% A+T and 39.3% G+C. Approximately 12% of the catfish genome consisted of dispersed repetitive elements, with the Tc1/mariner transposons making up the largest percentage by base pair (4.57%). Microsatellites were detected in 17.5% of BES. Catfish BACs were anchored to the zebrafish and Tetraodon genome sequences by BLASTN, generating 16% and 8.2% significant hits (E < e(-5)) respectively. A total of 1074 and 773 significant hits were unique to the zebrafish and Tetraodon genomes, respectively, of which 417 and 406, respectively, were identified as known genes in other species, providing a major genome resource for comparative genomic mapping.

journal_name

Anim Genet

journal_title

Animal genetics

authors

Xu P,Wang S,Liu L,Peatman E,Somridhivej B,Thimmapuram J,Gong G,Liu Z

doi

10.1111/j.1365-2052.2006.01453.x

subject

Has Abstract

pub_date

2006-08-01 00:00:00

pages

321-6

issue

4

eissn

0268-9146

issn

1365-2052

pii

AGE1453

journal_volume

37

pub_type

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