STUDY ON GENETIC VARIATIONS IN GROWTH-ASSOCIATED GENES  IN COMMON CARP USING AN RNA-SEQ APPROACH

Lưu Thị Hà Giang; Vũ Văn In; Vũ Thị Huyền; Phạm Hồng Nhật; Kim Thị Phương Oanh

doi:10.34238/tnu-jst.12042

STUDY ON GENETIC VARIATIONS IN GROWTH-ASSOCIATED GENES IN COMMON CARP USING AN RNA-SEQ APPROACH

About this article

Received: 13/02/25 Revised: 16/07/25 Published: 16/07/25

Authors

1. Luu Thi Ha Giang , Research Institute for Aquaculture No. 1
2. Vu Van In, Vietnam Japan University - Vietnam National University, Hanoi
3. Vu Thi Huyen, Research Institute for Aquaculture No. 1
4. Pham Hong Nhat, Research Institute for Aquaculture No. 1
5. Kim Thi Phuong Oanh, Institute of Biology - Vietnam Academy of Science and Technology

Abstract

Genetic variants play a crucial role in identifying genetic polymorphisms related to valuable traits, thus enhancing selection efficiency. This study utilized RNA sequencing technology and bioinformatics tools to analyze genetic variations between fast- and slow-growing carp groups, focusing on seven growth-related genes (GH, IGF, MRF5, MRF6, MyoD, MyoG, Myosin). The total number of reads obtained for the fast- and slow-growing carp was 24,598,256 ± 849,080 and 24,861,129 ± 1,082,078, respectively, with a high mapping rate ranging from 84.79 ± 4.42% to 87.64 ± 4.7%. The total number of variants identified in the fast-growing carps was 766,526, compared to 720,487 in the slow-growing carps. Variants were classified based on their impact, functional effects, and genomic locations in both groups. Over 80% of the variants were located in regulatory regions, while more than 53% were silent mutations, and a low proportion of variants were concentrated in the coding region (13.61–32.63%). The fast-growing carps exhibited a higher proportion of variants in coding regions, with GH having the highest proportion of 32.63%, suggesting its potential use as a molecular marker for selective breeding of fast-growing carps. These findings provide a scientific basis for developing molecular markers linked to growth traits in common carp.

Keywords

Genetic variation; Common carp; RNA-Seq; Growth-related genes; Functional impact

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DOI: https://doi.org/10.34238/tnu-jst.12042

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