Identification and characterization of a LTR retrotransposon from the genome of Cyprinus carpio var. Jian.

Abstract:

:A Ty3/gypsy-retrotransposon-type transposon was found in the genome of the Jian carp (Cyprinus carpio var. Jian) in a previous study (unpublished), and was designated a JRE retrotransposon (Jian retrotransposon). The full-length JRE retrotransposon is 5126 bp, which includes two long terminal repeats of 470 bp at the 5' end and 453 bp at the 3' end, and two open reading frames between them: 4203 bp encoding the group-specific antigen (GAG) and polyprotein (POL). The pol gene has a typical Ty3/gypsy retrotransposon structure, and the gene order is protease, reverse transcriptase, RNase H, and integrase (PR-RT-RH-IN). A phylogenetic analysis of the pol gene showed that it has similarities of 40.7, 40, and 32.8 %, to retrotransposons of Azumapecten farreri, Mizuhopecten yessoensis, and Xiphophorus maculatus, respectively. Therefore, JRE might belong to the JULE retrotransposon family. The copy number of the JRE transposon in the genome of the Jian carp is 124, determined with real-time quantitative PCR. The mRNA of the JRE retrotransposon is expressed in five Jian carp tissues, the liver, kidney, blood, muscle, and gonad, and slightly higher in the kidney and liver than in the other tissues.

journal_name

Genetica

journal_title

Genetica

authors

Cao L,Yin G,Cao Z,Bing X,Ding W

doi

10.1007/s10709-016-9901-6

subject

Has Abstract

pub_date

2016-06-01 00:00:00

pages

325-33

issue

3

eissn

0016-6707

issn

1573-6857

pii

10.1007/s10709-016-9901-6

journal_volume

144

pub_type

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