Genome-wide identification, classification, and characterization of lectin gene superfamily in sweet orange (Citrus sinensis L.).
Lectins are sugar-binding proteins found abundantly in plants. Lectin superfamily members have diverse roles, including plant growth, development, cellular processes, stress responses, and defense against microbes. However, the genome-wide identification and functional analysis of lectin genes in sw...
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| Format: | Article |
| Language: | English |
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Public Library of Science (PLoS)
2023-01-01
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| Series: | PLoS ONE |
| Online Access: | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0294233&type=printable |
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| author | Fee Faysal Ahmed Farah Sumaiya Dola Fatema Tuz Zohra Shaikh Mizanur Rahman Jesmin Naher Konak Md Abdur Rauf Sarkar |
| author_facet | Fee Faysal Ahmed Farah Sumaiya Dola Fatema Tuz Zohra Shaikh Mizanur Rahman Jesmin Naher Konak Md Abdur Rauf Sarkar |
| author_sort | Fee Faysal Ahmed |
| collection | DOAJ |
| description | Lectins are sugar-binding proteins found abundantly in plants. Lectin superfamily members have diverse roles, including plant growth, development, cellular processes, stress responses, and defense against microbes. However, the genome-wide identification and functional analysis of lectin genes in sweet orange (Citrus sinensis L.) remain unexplored. Therefore, we used integrated bioinformatics approaches (IBA) for in-depth genome-wide identification, characterization, and regulatory factor analysis of sweet orange lectin genes. Through genome-wide comparative analysis, we identified a total of 141 lectin genes distributed across 10 distinct gene families such as 68 CsB-Lectin, 13 CsLysin Motif (LysM), 4 CsChitin-Bind1, 1 CsLec-C, 3 CsGal-B, 1 CsCalreticulin, 3 CsJacalin, 13 CsPhloem, 11 CsGal-Lec, and 24 CsLectinlegB.This classification relied on characteristic domain and phylogenetic analysis, showing significant homology with Arabidopsis thaliana's lectin gene families. A thorough analysis unveiled common similarities within specific groups and notable variations across different protein groups. Gene Ontology (GO) enrichment analysis highlighted the predicted genes' roles in diverse cellular components, metabolic processes, and stress-related regulation. Additionally, network analysis of lectin genes with transcription factors (TFs) identified pivotal regulators like ERF, MYB, NAC, WRKY, bHLH, bZIP, and TCP. The cis-acting regulatory elements (CAREs) found in sweet orange lectin genes showed their roles in crucial pathways, including light-responsive (LR), stress-responsive (SR), hormone-responsive (HR), and more. These findings will aid in the in-depth molecular examination of these potential genes and their regulatory elements, contributing to targeted enhancements of sweet orange species in breeding programs. |
| first_indexed | 2024-03-09T00:21:51Z |
| format | Article |
| id | doaj.art-eccff9ec09d949c7acfc4ed3615916db |
| institution | Directory Open Access Journal |
| issn | 1932-6203 |
| language | English |
| last_indexed | 2024-03-09T00:21:51Z |
| publishDate | 2023-01-01 |
| publisher | Public Library of Science (PLoS) |
| record_format | Article |
| series | PLoS ONE |
| spelling | doaj.art-eccff9ec09d949c7acfc4ed3615916db2023-12-12T05:34:30ZengPublic Library of Science (PLoS)PLoS ONE1932-62032023-01-011811e029423310.1371/journal.pone.0294233Genome-wide identification, classification, and characterization of lectin gene superfamily in sweet orange (Citrus sinensis L.).Fee Faysal AhmedFarah Sumaiya DolaFatema Tuz ZohraShaikh Mizanur RahmanJesmin Naher KonakMd Abdur Rauf SarkarLectins are sugar-binding proteins found abundantly in plants. Lectin superfamily members have diverse roles, including plant growth, development, cellular processes, stress responses, and defense against microbes. However, the genome-wide identification and functional analysis of lectin genes in sweet orange (Citrus sinensis L.) remain unexplored. Therefore, we used integrated bioinformatics approaches (IBA) for in-depth genome-wide identification, characterization, and regulatory factor analysis of sweet orange lectin genes. Through genome-wide comparative analysis, we identified a total of 141 lectin genes distributed across 10 distinct gene families such as 68 CsB-Lectin, 13 CsLysin Motif (LysM), 4 CsChitin-Bind1, 1 CsLec-C, 3 CsGal-B, 1 CsCalreticulin, 3 CsJacalin, 13 CsPhloem, 11 CsGal-Lec, and 24 CsLectinlegB.This classification relied on characteristic domain and phylogenetic analysis, showing significant homology with Arabidopsis thaliana's lectin gene families. A thorough analysis unveiled common similarities within specific groups and notable variations across different protein groups. Gene Ontology (GO) enrichment analysis highlighted the predicted genes' roles in diverse cellular components, metabolic processes, and stress-related regulation. Additionally, network analysis of lectin genes with transcription factors (TFs) identified pivotal regulators like ERF, MYB, NAC, WRKY, bHLH, bZIP, and TCP. The cis-acting regulatory elements (CAREs) found in sweet orange lectin genes showed their roles in crucial pathways, including light-responsive (LR), stress-responsive (SR), hormone-responsive (HR), and more. These findings will aid in the in-depth molecular examination of these potential genes and their regulatory elements, contributing to targeted enhancements of sweet orange species in breeding programs.https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0294233&type=printable |
| spellingShingle | Fee Faysal Ahmed Farah Sumaiya Dola Fatema Tuz Zohra Shaikh Mizanur Rahman Jesmin Naher Konak Md Abdur Rauf Sarkar Genome-wide identification, classification, and characterization of lectin gene superfamily in sweet orange (Citrus sinensis L.). PLoS ONE |
| title | Genome-wide identification, classification, and characterization of lectin gene superfamily in sweet orange (Citrus sinensis L.). |
| title_full | Genome-wide identification, classification, and characterization of lectin gene superfamily in sweet orange (Citrus sinensis L.). |
| title_fullStr | Genome-wide identification, classification, and characterization of lectin gene superfamily in sweet orange (Citrus sinensis L.). |
| title_full_unstemmed | Genome-wide identification, classification, and characterization of lectin gene superfamily in sweet orange (Citrus sinensis L.). |
| title_short | Genome-wide identification, classification, and characterization of lectin gene superfamily in sweet orange (Citrus sinensis L.). |
| title_sort | genome wide identification classification and characterization of lectin gene superfamily in sweet orange citrus sinensis l |
| url | https://journals.plos.org/plosone/article/file?id=10.1371/journal.pone.0294233&type=printable |
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