Comparative Transcriptome and DNA methylation analyses of the molecular mechanisms underlying skin color variations in Crucian carp (Carassius carassius L.)

被引：53

作者：

Zhang, Yongqin ^{[1
,2
]}

Liu, Jinhui ^{[1
,2
]}

Fu, Wen ^{[1
,2
]}

Xu, Wenting ^{[1
,2
]}

Zhang, Huiqin ^{[1
,2
]}

Chen, Shujuan ^{[1
,2
]}

Liu, Wenbin ^{[1
,2
]}

Peng, Liangyue ^{[1
,2
]}

Xiao, Yamei ^{[1
,2
]}

机构：

[1] Hunan Normal Univ, State Key Lab Dev Biol Freshwater Fish, Changsha 410081, Hunan, Peoples R China

[2] Hunan Normal Univ, Sch Life Sci, Changsha 410081, Hunan, Peoples R China

来源：

BMC GENETICS | 2017年 / 18卷

基金：

美国国家科学基金会;

关键词：

Body color; Pigment cell; Transcriptome; DNA methylation; Crucian carp; NEURAL-CREST; CELL-FATE; RNA-SEQ; 4-HYDROXYPHENYLPYRUVATE DIOXYGENASE; MICROPHTHALMIA; MELANOCYTES; EXPRESSION; ZEBRAFISH; MITF; FISH;

D O I：

10.1186/s12863-017-0564-9

中图分类号：

Q3 [遗传学];

学科分类号：

071007 ; 090102 ;

摘要：

Background: Crucian carp is a popular ornamental strain in Asia with variants in body color. To further explore the genetic mechanisms underlying gray and red body color formation in crucian carp, the skin transcriptomes and partial DNA methylation sites were obtained from red crucian carp (RCC) and white crucian carp (WCC). Here, we show significant differences in mRNA expression and DNA methylation sites between skin tissues of RCC and WCC. Results: Totals of 3434 and 3683 unigenes had significantly lower and higher expression in WCC, respectively, compared with unigenes expressed in RCC. Some potential genes for body color development were further identified by quantitative polymerase chain reaction, such as mitfa, tyr, tyrp1, and dct, which were down-regulated, and foxd3, hpda, ptps, and gch1, which were up-regulated. A KEGG pathway analysis indicated that the differentially expressed genes were mainly related to mitogen activated protein kinase (MAPK), Wnt, cell cycle, and endocytosis signaling pathways, as well as variations in melanogenesis in crucian carp. In addition, some differentially expressed DNA methylation site genes were related to pigmentation, including mitfa, tyr, dct, foxd3, and hpda. The differentially expressed DNA methylation sites were mainly involved in signaling pathways, including MAPK, cAMP, endocytosis, melanogenesis, and Hippo. Conclusions: Our study provides the results of comparative transcriptome and DNA methylation analyses between RCC and WCC skin tissues and reveals that the molecular mechanism of body color variation in crucian carp is strongly related to disruptions in gene expression and DNA methylation during pigmentation.

引用

页数：12

共 49 条

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