Molecular Characterization and Expression of the <i>LAP3</i> Gene and Its Association with Growth Traits in the Blood Clam <i>Tegillarca granosa</i>
Leucine aminopeptidase 3 (LAP3) is a metallopeptidase that cleaves N-terminal residues and is involved in protein maturation and degradation. In this study, we characterized the <i>leucine aminopeptidase 3</i> (<i>LAP3</i>) gene from <i>Tegillarca granosa</i> (<...
| Main Authors: | , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
MDPI AG
2021-10-01
|
| Series: | Fishes |
| Subjects: | |
| Online Access: | https://www.mdpi.com/2410-3888/6/4/54 |
| _version_ | 1797504815948890112 |
|---|---|
| author | Hanhan Yao Fuzhen Ren Yongbo Bao Yinghui Dong Zhihua Lin |
| author_facet | Hanhan Yao Fuzhen Ren Yongbo Bao Yinghui Dong Zhihua Lin |
| author_sort | Hanhan Yao |
| collection | DOAJ |
| description | Leucine aminopeptidase 3 (LAP3) is a metallopeptidase that cleaves N-terminal residues and is involved in protein maturation and degradation. In this study, we characterized the <i>leucine aminopeptidase 3</i> (<i>LAP3</i>) gene from <i>Tegillarca granosa</i> (<i>Tg-LAP3</i> for short), which appeared to consist of 15,731 nucleotides encoding 530 amino acids. We identified 12 introns and 13 exons in the <i>Tg-LAP3</i> gene, suggesting a highly conserved genomic structure. The proximal promoter sequence consists of 1922 bps with a typical TATA box structure, which is the general structural characteristic of core promoters in eukaryotes. We found two functional domains in the Tg-LAP3 protein, including an N-terminal domain (41–174aa) and a peptidase_M17 catalytic domain (209–522aa). Multiple alignment showed that Tg-LAP3 shares 73.4% identity with LAP3 of <i>Mizuhopecten</i> <i>yessoensis</i> and 55.2–70.7% identity with LAP3 of other species. Quantitative analysis of <i>Tg-LAP3</i> in embryos/larvae and adult tissues indicated that the highest expression occurred in eyebot larva, with limited expression in other stages; among tissues, the highest expression was found in the liver (<i>p</i> < 0.05). Association analysis found that three single-nucleotide polymorphisms (SNPs) (g.-488A > G, g.-1123C > T, and g.-1304C > A) in the proximal promoter were successfully typed, but there was no significant difference in growth traits (body weight, shell length, shell width, and shell height) among these genotypes. The results of our study demonstrate the functional roles of the <i>Tg-LAP3</i> gene and provide valuable information for molecular marker-assisted selection (MAS) of the blood clam. |
| first_indexed | 2024-03-10T04:09:44Z |
| format | Article |
| id | doaj.art-fe4c74c103d64c77ba63c8df8efe0af3 |
| institution | Directory Open Access Journal |
| issn | 2410-3888 |
| language | English |
| last_indexed | 2024-03-10T04:09:44Z |
| publishDate | 2021-10-01 |
| publisher | MDPI AG |
| record_format | Article |
| series | Fishes |
| spelling | doaj.art-fe4c74c103d64c77ba63c8df8efe0af32023-11-23T08:14:51ZengMDPI AGFishes2410-38882021-10-01645410.3390/fishes6040054Molecular Characterization and Expression of the <i>LAP3</i> Gene and Its Association with Growth Traits in the Blood Clam <i>Tegillarca granosa</i>Hanhan Yao0Fuzhen Ren1Yongbo Bao2Yinghui Dong3Zhihua Lin4Zhejiang Key Laboratory of Aquatic Germplasm Resources, Zhejiang Wanli University, Ningbo 315100, ChinaZhejiang Key Laboratory of Aquatic Germplasm Resources, Zhejiang Wanli University, Ningbo 315100, ChinaZhejiang Key Laboratory of Aquatic Germplasm Resources, Zhejiang Wanli University, Ningbo 315100, ChinaZhejiang Key Laboratory of Aquatic Germplasm Resources, Zhejiang Wanli University, Ningbo 315100, ChinaNinghai Institute of Mariculture Breeding and Seed Industry, Zhejiang Wanli University, Ningbo 315604, ChinaLeucine aminopeptidase 3 (LAP3) is a metallopeptidase that cleaves N-terminal residues and is involved in protein maturation and degradation. In this study, we characterized the <i>leucine aminopeptidase 3</i> (<i>LAP3</i>) gene from <i>Tegillarca granosa</i> (<i>Tg-LAP3</i> for short), which appeared to consist of 15,731 nucleotides encoding 530 amino acids. We identified 12 introns and 13 exons in the <i>Tg-LAP3</i> gene, suggesting a highly conserved genomic structure. The proximal promoter sequence consists of 1922 bps with a typical TATA box structure, which is the general structural characteristic of core promoters in eukaryotes. We found two functional domains in the Tg-LAP3 protein, including an N-terminal domain (41–174aa) and a peptidase_M17 catalytic domain (209–522aa). Multiple alignment showed that Tg-LAP3 shares 73.4% identity with LAP3 of <i>Mizuhopecten</i> <i>yessoensis</i> and 55.2–70.7% identity with LAP3 of other species. Quantitative analysis of <i>Tg-LAP3</i> in embryos/larvae and adult tissues indicated that the highest expression occurred in eyebot larva, with limited expression in other stages; among tissues, the highest expression was found in the liver (<i>p</i> < 0.05). Association analysis found that three single-nucleotide polymorphisms (SNPs) (g.-488A > G, g.-1123C > T, and g.-1304C > A) in the proximal promoter were successfully typed, but there was no significant difference in growth traits (body weight, shell length, shell width, and shell height) among these genotypes. The results of our study demonstrate the functional roles of the <i>Tg-LAP3</i> gene and provide valuable information for molecular marker-assisted selection (MAS) of the blood clam.https://www.mdpi.com/2410-3888/6/4/54blood clamgrowth traitsleucine aminopeptidase 3single nucleotide polymorphisms (SNPs) |
| spellingShingle | Hanhan Yao Fuzhen Ren Yongbo Bao Yinghui Dong Zhihua Lin Molecular Characterization and Expression of the <i>LAP3</i> Gene and Its Association with Growth Traits in the Blood Clam <i>Tegillarca granosa</i> Fishes blood clam growth traits leucine aminopeptidase 3 single nucleotide polymorphisms (SNPs) |
| title | Molecular Characterization and Expression of the <i>LAP3</i> Gene and Its Association with Growth Traits in the Blood Clam <i>Tegillarca granosa</i> |
| title_full | Molecular Characterization and Expression of the <i>LAP3</i> Gene and Its Association with Growth Traits in the Blood Clam <i>Tegillarca granosa</i> |
| title_fullStr | Molecular Characterization and Expression of the <i>LAP3</i> Gene and Its Association with Growth Traits in the Blood Clam <i>Tegillarca granosa</i> |
| title_full_unstemmed | Molecular Characterization and Expression of the <i>LAP3</i> Gene and Its Association with Growth Traits in the Blood Clam <i>Tegillarca granosa</i> |
| title_short | Molecular Characterization and Expression of the <i>LAP3</i> Gene and Its Association with Growth Traits in the Blood Clam <i>Tegillarca granosa</i> |
| title_sort | molecular characterization and expression of the i lap3 i gene and its association with growth traits in the blood clam i tegillarca granosa i |
| topic | blood clam growth traits leucine aminopeptidase 3 single nucleotide polymorphisms (SNPs) |
| url | https://www.mdpi.com/2410-3888/6/4/54 |
| work_keys_str_mv | AT hanhanyao molecularcharacterizationandexpressionoftheilap3igeneanditsassociationwithgrowthtraitsinthebloodclamitegillarcagranosai AT fuzhenren molecularcharacterizationandexpressionoftheilap3igeneanditsassociationwithgrowthtraitsinthebloodclamitegillarcagranosai AT yongbobao molecularcharacterizationandexpressionoftheilap3igeneanditsassociationwithgrowthtraitsinthebloodclamitegillarcagranosai AT yinghuidong molecularcharacterizationandexpressionoftheilap3igeneanditsassociationwithgrowthtraitsinthebloodclamitegillarcagranosai AT zhihualin molecularcharacterizationandexpressionoftheilap3igeneanditsassociationwithgrowthtraitsinthebloodclamitegillarcagranosai |