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Guo S, Zang H, Liu X, Jing X, Liu Z, Zhang W, Wang M, Zheng Y, Li Z, Qiu J, Chen D, Yan T, Guo R. Full-Length Transcriptome Construction and Systematic Characterization of Virulence Factor-Associated Isoforms in Vairimorpha ( Nosema) Ceranae. Genes (Basel) 2024; 15:1111. [PMID: 39336702 PMCID: PMC11431495 DOI: 10.3390/genes15091111] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/28/2024] [Revised: 08/15/2024] [Accepted: 08/20/2024] [Indexed: 09/30/2024] Open
Abstract
Vairimorpha (Nosema) ceranae is a single-cellular fungus that obligately infects the midgut epithelial cells of adult honeybees, causing bee microsporidiosis and jeopardizing bee health and production. This work aims to construct the full-length transcriptome of V. ceranae and conduct a relevant investigation using PacBio single-molecule real-time (SMRT) sequencing technology. Following PacBio SMRT sequencing, 41,950 circular consensus (CCS) were generated, and 25,068 full-length non-chimeric (FLNC) reads were then detected. After polishing, 4387 high-quality, full-length transcripts were gained. There are 778, 2083, 1202, 1559, 1457, 1232, 1702, and 3896 full-length transcripts that could be annotated to COG, GO, KEGG, KOG, Pfam, Swiss-Prot, eggNOG, and Nr databases, respectively. Additionally, 11 alternative splicing (AS) events occurred in 6 genes were identified, including 1 alternative 5' splice-site and 10 intron retention. The structures of 225 annotated genes in the V. ceranae reference genome were optimized, of which 29 genes were extended at both 5' UTR and 3' UTR, while 90 and 106 genes were, respectively, extended at the 5' UTR as well as 3' UTR. Furthermore, a total of 29 high-confidence lncRNAs were obtained, including 12 sense-lncRNAs, 10 lincRNAs, and 7 antisense-lncRNAs. Taken together, the high-quality, full-length transcriptome of V. ceranae was constructed and annotated, the structures of annotated genes in the V. ceranae reference genome were improved, and abundant new genes, transcripts, and lncRNAs were discovered. Findings from this current work offer a valuable resource and a crucial foundation for molecular and omics research on V. ceranae.
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Affiliation(s)
- Sijia Guo
- College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (S.G.); (H.Z.); (X.L.); (X.J.); (Z.L.); (W.Z.); (M.W.); (Y.Z.); (Z.L.); (J.Q.); (D.C.)
| | - He Zang
- College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (S.G.); (H.Z.); (X.L.); (X.J.); (Z.L.); (W.Z.); (M.W.); (Y.Z.); (Z.L.); (J.Q.); (D.C.)
- National & Local United Engineering Laboratory of Natural Biotoxin, Fuzhou 350002, China
- Apitherapy Research Institute of Fujian Province, Fuzhou 350002, China
| | - Xiaoyu Liu
- College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (S.G.); (H.Z.); (X.L.); (X.J.); (Z.L.); (W.Z.); (M.W.); (Y.Z.); (Z.L.); (J.Q.); (D.C.)
| | - Xin Jing
- College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (S.G.); (H.Z.); (X.L.); (X.J.); (Z.L.); (W.Z.); (M.W.); (Y.Z.); (Z.L.); (J.Q.); (D.C.)
| | - Zhitan Liu
- College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (S.G.); (H.Z.); (X.L.); (X.J.); (Z.L.); (W.Z.); (M.W.); (Y.Z.); (Z.L.); (J.Q.); (D.C.)
| | - Wende Zhang
- College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (S.G.); (H.Z.); (X.L.); (X.J.); (Z.L.); (W.Z.); (M.W.); (Y.Z.); (Z.L.); (J.Q.); (D.C.)
| | - Mengyi Wang
- College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (S.G.); (H.Z.); (X.L.); (X.J.); (Z.L.); (W.Z.); (M.W.); (Y.Z.); (Z.L.); (J.Q.); (D.C.)
| | - Yidi Zheng
- College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (S.G.); (H.Z.); (X.L.); (X.J.); (Z.L.); (W.Z.); (M.W.); (Y.Z.); (Z.L.); (J.Q.); (D.C.)
| | - Zhengyuan Li
- College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (S.G.); (H.Z.); (X.L.); (X.J.); (Z.L.); (W.Z.); (M.W.); (Y.Z.); (Z.L.); (J.Q.); (D.C.)
| | - Jianfeng Qiu
- College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (S.G.); (H.Z.); (X.L.); (X.J.); (Z.L.); (W.Z.); (M.W.); (Y.Z.); (Z.L.); (J.Q.); (D.C.)
- National & Local United Engineering Laboratory of Natural Biotoxin, Fuzhou 350002, China
- Apitherapy Research Institute of Fujian Province, Fuzhou 350002, China
| | - Dafu Chen
- College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (S.G.); (H.Z.); (X.L.); (X.J.); (Z.L.); (W.Z.); (M.W.); (Y.Z.); (Z.L.); (J.Q.); (D.C.)
- National & Local United Engineering Laboratory of Natural Biotoxin, Fuzhou 350002, China
- Apitherapy Research Institute of Fujian Province, Fuzhou 350002, China
| | - Tizhen Yan
- National & Local United Engineering Laboratory of Natural Biotoxin, Fuzhou 350002, China
- Institute of Reproduction and Genetics, Dongguan Maternal and Children Health Hospital, Dongguan 510110, China
| | - Rui Guo
- College of Bee Science and Biomedicine, Fujian Agriculture and Forestry University, Fuzhou 350002, China; (S.G.); (H.Z.); (X.L.); (X.J.); (Z.L.); (W.Z.); (M.W.); (Y.Z.); (Z.L.); (J.Q.); (D.C.)
- National & Local United Engineering Laboratory of Natural Biotoxin, Fuzhou 350002, China
- Apitherapy Research Institute of Fujian Province, Fuzhou 350002, China
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Zhang S, Zhang L, Liu T, Qiao Y, Cao X, Cheng J, Wu H, Shen H. Investigating the transcriptomic variances in two phases Ecytonucleospora hepatopenaei (EHP) in Litopenaeus vannamei. J Invertebr Pathol 2024; 203:108061. [PMID: 38244837 DOI: 10.1016/j.jip.2024.108061] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/24/2023] [Revised: 01/09/2024] [Accepted: 01/17/2024] [Indexed: 01/22/2024]
Abstract
This study explores the transcriptomic differences in two distinct phases of Ecytonucleospora hepatopenaei (EHP) in Litopenaeus vannamei, a crucial aspect in shrimp health management. We employed high-throughput sequencing to categorize samples into two phases, 'Phase A' and 'Phase B', defined by the differential expression of PTP2 and TPS1 genes. Our analysis identified 2057 genes, with 78 exhibiting significant variances, including 62 upregulated and 16 downregulated genes. Enrichment analyses via GO and KEGG pathways highlighted these genes' roles in cellular metabolism, signal transduction, and immune responses. Notably, genes like IQGAP2, Rhob, Pim1, and PCM1 emerged as potentially crucial in EHP's infection process and lifecycle. We hypothesize that these genes may influence trehalose metabolism and glucose provision, impacting the biological activities within EHP during different phases. Interestingly, a lower transcript count in 'Phase A' EHP suggests a reduction in biological activities, likely preparing for host cell invasion. This research provides a foundational understanding of EHP infection mechanisms, offering vital insights for future studies and therapeutic interventions.
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Affiliation(s)
- Sheng Zhang
- Jiangsu Marine Fisheries Research Institute, Nantong 226007, China; Jiangsu Ocean University, Lianyungang 222005, China
| | - Leiting Zhang
- Jiangsu Marine Fisheries Research Institute, Nantong 226007, China; Nanjing Normal University, Nanjing 210023, China
| | - Tingyue Liu
- Nanjing Normal University, Nanjing 210023, China
| | - Yi Qiao
- Jiangsu Marine Fisheries Research Institute, Nantong 226007, China
| | - Xiaohui Cao
- Jiangsu Marine Fisheries Research Institute, Nantong 226007, China
| | - Jie Cheng
- Jiangsu Marine Fisheries Research Institute, Nantong 226007, China
| | - Hailong Wu
- Jiangsu Ocean University, Lianyungang 222005, China
| | - Hui Shen
- Jiangsu Marine Fisheries Research Institute, Nantong 226007, China; Jiangsu Ocean University, Lianyungang 222005, China; Nanjing Normal University, Nanjing 210023, China.
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