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Shahid Mahboob Rana

Professor

Faculty

كلية العلوم
69AB Builiding No. 5 P. O. Box 2455 College of Science
publication
Journal Article
2019
Published in:

Changes in DNA methylation during epigenetic-associated sex reversal under low temperature in Takifugu rubripes

, He Zhou, Zi-Xin Zhuang, Yu-Qing Sun, Qi Chen, Xin-Yi Zheng, Yu-Ting Lian, Shahid Mahboob, Qian Wang, Rui Zhang, Khalid A Al-Ghanim, Chang-Wei Shao, Ya-Juan Li . 2019

DNA methylation has frequently been implicated in sex determination and differentiation in teleost species. In order to detect the DNA methylation patterns established during sexual differentiation in tiger pufferfish T. rubripes, we performed comprehensive whole genome methylation sequencing and analyses of the gonads of male, female, and pseudo male. We obtained a total of 33.12, 32.44, and 31.60 Gb clean data for male, female, and pseudo male, with a sequencing depth of 66.44×, 60.47× and 54.86×, respectively. The methylation level of cytosine (C) residues in the genomic DNA from gonads was 11.016%, 10.428%, and 11.083% in male, female, and pseudo male, respectively. More than 65% of C methylation was at CpG sites, and less than 1% was at CHG and CHH sites. In each regulatory element, there were low methylation levels on both sides of the transcription start site, and higher methylation levels in exons, introns, and downstream of genes. The highest mCpG was on chromosome 8 and the lowest mCpG was on chromosome 5. Comparisons of whole-genome DNA methylation between pairs of samples revealed that there were 3,173 differentially methylated regions (DMRs) between female and male, and 3,037 DMRs between male and pseudo male, corresponding to 0.232% and 0.223% of the length of the genome, respectively. There were only 1,635 DMRs between female and pseudo male, representing 0.127% of the length of the genome. A number of differentially methylated genes (DMGs) related to sex determination and differentiation were selected, such as amhr2 and pfcyp19a. After Bisulfite Sequencing PCR (BSP) verification, amhr2 was exhibited low methylation level in normal males and pseudo male, and high methylation level in normal females but pfcyp19a showed low methylation level in normal females and high methylation level in normal males and pseudo males. These results provide information about the molecular epigenetic mechanisms of DNA methylation during low-temperature induced masculinization of tiger pufferfish, and increase our understanding of the mechanisms of sex determination and differentiation in this important aquaculture fish species.

Publication Work Type
Research work
Volume Number
14
Issue Number
8
Pages
e0221641
more of publication
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Extensive application of pesticides in the agricultural field affects the enzymatic activity of non-target animals,
including fishes. In this study, the impact of sublethal concentration of…

by K.A. Al-Ghanim, Shahid Mahboob , P. Vijayaraghavan , F.A. Al-Misned , Young Ock Kim , Hak-Jae Kim
2020
Published in:
Saudi Journal of Biolgical Sciences
publications

Fish kidneys are sensitive to chemical changes in the freshwater ecosystem because they are directly and constantly exposed to chemicals dissolved in the water. This study evaluated nephrotoxicity…

by Bilal Hussain., Maleeha Fatima., Khalid Abdullah Al-Ghanim and Shahid Mahboob
2019
Published in:
Elsevier
publications

In this study, the concept of functional traits was used to classify zooplankton into functional groups and their seasonal dynamics were determined in relation to physico-chemical factors in a…

by Chengxue Ma, Patteson Chula Mwagona, Hongxian Yu, Xiaowen Sun, Liqun Liang & Shahid Mahboob
2019
Published in:
Taylor & Francis