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Zhou L, Liu Z, Zheng Z, Yao D, Zhao Y, Chen X, Zhang Y, Aweya JJ. The CCR1 and CCR5 C-C chemokine receptors in Penaeus vannamei are annexed by bacteria to attenuate shrimp survival. DEVELOPMENTAL AND COMPARATIVE IMMUNOLOGY 2023; 139:104561. [PMID: 36183838 DOI: 10.1016/j.dci.2022.104561] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/26/2022] [Revised: 09/09/2022] [Accepted: 09/26/2022] [Indexed: 06/16/2023]
Abstract
The C-C chemokine receptors (CCRs) family is involved in diverse pathophysiological processes in mammals, such as immune regulation and cancer, but their functions in invertebrates remain enigmatic. Here, two CCR homologs in Penaeus vannamei (designated PvCCR1 and PvCCR5) were characterized and found to share sequence homology with other CCRs and contain the conserved 7TM functional domain. Both PvCCR1 and PvCCR5 were constitutively expressed in healthy shrimp tissues, while their mRNA transcript levels were induced in hepatopancreas and hemocytes by Vibrio parahaemolyticus, Streptococcus iniae, and white spot syndrome virus. Notably, shrimp survival increased after knockdown of PvCCR1 and PvCCR5 followed by V. parahaemolyticus infection, indicating that PvCCR1 and PvCCR5 are annexed by the bacteria for their benefit, the absence of which attenuates the effects of the pathogen on shrimp survival. The present data indicate that PvCCR1 and PvCCR5 play key roles in the antimicrobial immune response and therefore vital for shrimp survival.
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Affiliation(s)
- Liping Zhou
- Institute of Marine Sciences and Guangdong Provincial Key Laboratory of Marine Biotechnology, Shantou University, Shantou, 515063, China
| | - Zhouyan Liu
- Institute of Marine Sciences and Guangdong Provincial Key Laboratory of Marine Biotechnology, Shantou University, Shantou, 515063, China
| | - Zhihong Zheng
- Institute of Marine Sciences and Guangdong Provincial Key Laboratory of Marine Biotechnology, Shantou University, Shantou, 515063, China
| | - Defu Yao
- Institute of Marine Sciences and Guangdong Provincial Key Laboratory of Marine Biotechnology, Shantou University, Shantou, 515063, China
| | - Yongzhen Zhao
- Guangxi Academy of Fishery Sciences, Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Nanning, 530021, China
| | - Xiuli Chen
- Guangxi Academy of Fishery Sciences, Guangxi Key Laboratory of Aquatic Genetic Breeding and Healthy Aquaculture, Nanning, 530021, China
| | - Yueling Zhang
- Southern Marine Science and Engineering Guangdong Laboratory, Guangzhou, 511458, China; Institute of Marine Sciences and Guangdong Provincial Key Laboratory of Marine Biotechnology, Shantou University, Shantou, 515063, China
| | - Jude Juventus Aweya
- College of Ocean Food and Biological Engineering, Fujian Provincial Key Laboratory of Food Microbiology and Enzyme Engineering, Jimei University, Xiamen, 361021, Fujian, China; Institute of Marine Sciences and Guangdong Provincial Key Laboratory of Marine Biotechnology, Shantou University, Shantou, 515063, China.
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Edeh MO, Dalal S, Obagbuwa IC, Prasad BVVS, Ninoria SZ, Wajid MA, Adesina AO. Bootstrapping random forest and CHAID for prediction of white spot disease among shrimp farmers. Sci Rep 2022; 12:20876. [PMID: 36463244 PMCID: PMC9719464 DOI: 10.1038/s41598-022-25109-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/15/2022] [Accepted: 11/24/2022] [Indexed: 12/07/2022] Open
Abstract
Technology is playing an important role is healthcare particularly as it relates to disease prevention and detection. This is evident in the COVID-19 era as different technologies were deployed to test, detect and track patients and ensure COVID-19 protocol compliance. The White Spot Disease (WSD) is a very contagious disease caused by virus. It is widespread among shrimp farmers due to its mode of transmission and source. Considering the growing concern about the severity of the disease, this study provides a predictive model for diagnosis and detection of WSD among shrimp farmers using visualization and machine learning algorithms. The study made use of dataset from Mendeley repository. Machine learning algorithms; Random Forest classification and CHAID were applied for the study, while Python was used for implementation of algorithms and for visualization of results. The results achieved showed high prediction accuracy (98.28%) which is an indication of the suitability of the model for accurate prediction of the disease. The study would add to growing knowledge about use of technology to manage White Spot Disease among shrimp farmers and ensure real-time prediction during and post COVID-19.
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Affiliation(s)
- Michael Onyema Edeh
- Department of Vocational and Technical Education, Faculty of Education, Alex Ekwueme Federal University, Ndufu-Alike, Abakaliki, Nigeria ,Department of Mathematics and Computer Science, Coal City University, Enugu, Nigeria
| | - Surjeet Dalal
- grid.444644.20000 0004 1805 0217Amity University Haryana, Gurugram, 122413 India
| | | | - B. V. V. Siva Prasad
- Department of CSE, School of Engineering, Malla Reddy University, Hyderabad, India
| | - Shalini Zanzote Ninoria
- grid.449731.c0000 0004 4670 6826College of Computing Science and IT, Teerthanker Mahaveer University, Moradabad, Uttar Pradesh India
| | - Mohd Anas Wajid
- grid.411340.30000 0004 1937 0765Department of Computer Science, Aligarh Muslim University, Aligarh, 202002 India
| | - Ademola Olusola Adesina
- grid.412320.60000 0001 2291 4792Department of Mathematical Sciences, Olabisi Onabanjo Univeristy, Ago-Iwoye, Nigeria
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Rab7 Investigation Insights into the Existence of White Spot Syndrome Virus in Crustaceans: An In Silico Approach. Adv Virol 2022; 2022:3887441. [PMID: 36313590 PMCID: PMC9613395 DOI: 10.1155/2022/3887441] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2022] [Accepted: 08/17/2022] [Indexed: 11/17/2022] Open
Abstract
In this study, previously published Rab7 sequences from National Center for Biotechnology Information (NCBI) have been investigated from chordates, mollusks, annelids, cnidarians, amphibians, priapulids, brachiopods, and arthropods including decapods and other groups. Among decapod crustacean isolates, amino acid variations were found in 13 locations. Penaeid shrimps had variations in positions 13 (I ⟶ J), 22 (T ⟶ A), 124 (G ⟶ X), and 149 (V ⟶ X) while interestingly the freshwater prawn and mitten crab both had amino acid substitutions in positions 87 (V ⟶ C) and 95 (T ⟶ S) along with the other disagreements in amino acid positions 178 (S ⟶ N), 201 (D ⟶ E), 181 (E ⟶ D), 182 (L ⟶ I), 183 (Y ⟶ G), 184 (N ⟶ H), and 198 (A ⟶ T). Among 100 isolates of Rab7 from organisms of various phyla, mutations were observed in several positions. These mutations caused variations in hydrophobicity and isoelectric point which impact the ligand-protein binding affinity. Some common mutations were found in the organisms of the same phylum and among different phyla. Homology modeling of Rab7 proteins from different organisms was done using SWISS-MODEL and validated further by developing Ramachandran plots. Protein-protein docking showed that active residues were there in the binding interfaces of Rab7 from organisms of seven different phyla and VP28 of WSSV. Similarities were observed in the Rab7-VP28 complexes in those selected organisms which differed from the Rab7-VP28 complex in the case of Penaeid shrimp. The findings of this study suggest that WSSV may exist in different marine organisms that have Rab7 protein and transmit to crustaceans like shrimps and crabs which are of commercial importance.
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