Identifying Relationships between <i>Glutathione S-Transferase-2</i> Single Nucleotide Polymorphisms and Hypoxia Tolerance and Growth Traits in <i>Macrobrachium nipponense</i>
Investigating hypoxia tolerance and growth trait single nucleotide polymorphisms (SNPs) in <i>Macrobrachium nipponense</i> is conducive to cultivating prawns with hypoxia tolerance and good growth characteristics. The glutathione S-transferase-2 gene (<i>GST-2</i>) has been s...
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MDPI AG
2024-02-01
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| author | Xuanbin Gao Zijian Gao Minglei Zhang Hui Qiao Sufei Jiang Wenyi Zhang Yiwei Xiong Shubo Jin Hongtuo Fu |
| author_facet | Xuanbin Gao Zijian Gao Minglei Zhang Hui Qiao Sufei Jiang Wenyi Zhang Yiwei Xiong Shubo Jin Hongtuo Fu |
| author_sort | Xuanbin Gao |
| collection | DOAJ |
| description | Investigating hypoxia tolerance and growth trait single nucleotide polymorphisms (SNPs) in <i>Macrobrachium nipponense</i> is conducive to cultivating prawns with hypoxia tolerance and good growth characteristics. The glutathione S-transferase-2 gene (<i>GST-2</i>) has been shown to regulate hypoxia responses in <i>M. nipponense</i>. In this study, we identified a single <i>GST-2</i> SNP in <i>M. nipponense</i>, and analyzed its regulatory relationship with hypoxia tolerance and growth. The <i>GST-2</i> sequence was amplified with a polymerase chain reaction from 197 “Taihu Lake No. 3”, “Taihu Lake No. 2”, and Pearl River population samples to identify SNP loci. The full-length <i>Mn-GST2</i> sequence was 2317 bp, including three exons and two introns. In total, 38 candidate SNP loci were identified from <i>GST-2</i> using Mega11.0 comparisons, with most loci moderately polymorphic in terms of genetic diversity. Locus genotypes were also analyzed, and basic genetic parameters for loci were calculated using Popgene32 and <i>PIC_CALC</i>. The expected heterozygosity of the 38 SNP loci ranged from 0.2334 to 0.4997, with an average of 0.4107, while observed heterozygosity ranged from 0.1929 to 0.4721, with an average of 0.3401. The polymorphic information content ranged from 0.21 to 0.37. From SPSS analyses, the G+256A locus was significantly correlated with hypoxia tolerance across all three <i>M. nipponense</i> populations, while the SNP loci A+261C, C+898T, A+1370C, and G+1373T were significantly associated with growth traits. Further analyses revealed that the T+2017C locus was significantly correlated with hypoxia tolerance in “Taihu Lake No. 2” populations, G+256A, A+808T, C+1032T, and A+1530G loci were significantly correlated with hypoxia tolerance in “Taihu Lake No. 3” populations, while no SNP loci were correlated with hypoxia tolerance in Pearl River populations. A+1370C and G+1373T loci, which were associated with growth traits, exhibited a high degree of linkage disequilibrium (r<sup>2</sup> = 0.89 and r<sup>2</sup> > 0.8), suggesting potential genetic linkage. Our data suggest associations between hypoxia tolerance and growth trait SNP loci in <i>M. nipponense</i>, and provide valuable evidence for the genetic improvement of growth and hypoxia tolerance in this prawn species. |
| first_indexed | 2024-04-25T00:36:33Z |
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| spelling | doaj.art-6b006d84380a4921864ea006308c4f382024-03-12T16:37:46ZengMDPI AGAnimals2076-26152024-02-0114566610.3390/ani14050666Identifying Relationships between <i>Glutathione S-Transferase-2</i> Single Nucleotide Polymorphisms and Hypoxia Tolerance and Growth Traits in <i>Macrobrachium nipponense</i>Xuanbin Gao0Zijian Gao1Minglei Zhang2Hui Qiao3Sufei Jiang4Wenyi Zhang5Yiwei Xiong6Shubo Jin7Hongtuo Fu8Wuxi Fisheries College, Nanjing Agricultural University, Wuxi 214081, ChinaWuxi Fisheries College, Nanjing Agricultural University, Wuxi 214081, ChinaShandong Freshwater Fisheries Research Institute, Jinan 250013, ChinaKey Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, ChinaKey Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, ChinaKey Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, ChinaKey Laboratory of Freshwater Fisheries and Germplasm Resources Utilization, Ministry of Agriculture, Freshwater Fisheries Research Center, Chinese Academy of Fishery Sciences, Wuxi 214081, ChinaWuxi Fisheries College, Nanjing Agricultural University, Wuxi 214081, ChinaWuxi Fisheries College, Nanjing Agricultural University, Wuxi 214081, ChinaInvestigating hypoxia tolerance and growth trait single nucleotide polymorphisms (SNPs) in <i>Macrobrachium nipponense</i> is conducive to cultivating prawns with hypoxia tolerance and good growth characteristics. The glutathione S-transferase-2 gene (<i>GST-2</i>) has been shown to regulate hypoxia responses in <i>M. nipponense</i>. In this study, we identified a single <i>GST-2</i> SNP in <i>M. nipponense</i>, and analyzed its regulatory relationship with hypoxia tolerance and growth. The <i>GST-2</i> sequence was amplified with a polymerase chain reaction from 197 “Taihu Lake No. 3”, “Taihu Lake No. 2”, and Pearl River population samples to identify SNP loci. The full-length <i>Mn-GST2</i> sequence was 2317 bp, including three exons and two introns. In total, 38 candidate SNP loci were identified from <i>GST-2</i> using Mega11.0 comparisons, with most loci moderately polymorphic in terms of genetic diversity. Locus genotypes were also analyzed, and basic genetic parameters for loci were calculated using Popgene32 and <i>PIC_CALC</i>. The expected heterozygosity of the 38 SNP loci ranged from 0.2334 to 0.4997, with an average of 0.4107, while observed heterozygosity ranged from 0.1929 to 0.4721, with an average of 0.3401. The polymorphic information content ranged from 0.21 to 0.37. From SPSS analyses, the G+256A locus was significantly correlated with hypoxia tolerance across all three <i>M. nipponense</i> populations, while the SNP loci A+261C, C+898T, A+1370C, and G+1373T were significantly associated with growth traits. Further analyses revealed that the T+2017C locus was significantly correlated with hypoxia tolerance in “Taihu Lake No. 2” populations, G+256A, A+808T, C+1032T, and A+1530G loci were significantly correlated with hypoxia tolerance in “Taihu Lake No. 3” populations, while no SNP loci were correlated with hypoxia tolerance in Pearl River populations. A+1370C and G+1373T loci, which were associated with growth traits, exhibited a high degree of linkage disequilibrium (r<sup>2</sup> = 0.89 and r<sup>2</sup> > 0.8), suggesting potential genetic linkage. Our data suggest associations between hypoxia tolerance and growth trait SNP loci in <i>M. nipponense</i>, and provide valuable evidence for the genetic improvement of growth and hypoxia tolerance in this prawn species.https://www.mdpi.com/2076-2615/14/5/666<i>Macrobrachium nipponense</i>hypoxiagrowth<i>GST-2</i>single nucleotide polymorphism |
| spellingShingle | Xuanbin Gao Zijian Gao Minglei Zhang Hui Qiao Sufei Jiang Wenyi Zhang Yiwei Xiong Shubo Jin Hongtuo Fu Identifying Relationships between <i>Glutathione S-Transferase-2</i> Single Nucleotide Polymorphisms and Hypoxia Tolerance and Growth Traits in <i>Macrobrachium nipponense</i> Animals <i>Macrobrachium nipponense</i> hypoxia growth <i>GST-2</i> single nucleotide polymorphism |
| title | Identifying Relationships between <i>Glutathione S-Transferase-2</i> Single Nucleotide Polymorphisms and Hypoxia Tolerance and Growth Traits in <i>Macrobrachium nipponense</i> |
| title_full | Identifying Relationships between <i>Glutathione S-Transferase-2</i> Single Nucleotide Polymorphisms and Hypoxia Tolerance and Growth Traits in <i>Macrobrachium nipponense</i> |
| title_fullStr | Identifying Relationships between <i>Glutathione S-Transferase-2</i> Single Nucleotide Polymorphisms and Hypoxia Tolerance and Growth Traits in <i>Macrobrachium nipponense</i> |
| title_full_unstemmed | Identifying Relationships between <i>Glutathione S-Transferase-2</i> Single Nucleotide Polymorphisms and Hypoxia Tolerance and Growth Traits in <i>Macrobrachium nipponense</i> |
| title_short | Identifying Relationships between <i>Glutathione S-Transferase-2</i> Single Nucleotide Polymorphisms and Hypoxia Tolerance and Growth Traits in <i>Macrobrachium nipponense</i> |
| title_sort | identifying relationships between i glutathione s transferase 2 i single nucleotide polymorphisms and hypoxia tolerance and growth traits in i macrobrachium nipponense i |
| topic | <i>Macrobrachium nipponense</i> hypoxia growth <i>GST-2</i> single nucleotide polymorphism |
| url | https://www.mdpi.com/2076-2615/14/5/666 |
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