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Abdel-Galil FA, Mousa SE, Abou-Elhagag GH, Ahmed AMM, Al-Farga A, Allam M, Mahmoud MAB. Morphogenetic identification of a new record Deudorix livia (Lepidoptera: Lycaenidae) in Assiut Governorate of Northern Upper Egypt. Sci Rep 2023; 13:20009. [PMID: 37974014 PMCID: PMC10654914 DOI: 10.1038/s41598-023-46231-8] [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: 09/16/2022] [Accepted: 10/30/2023] [Indexed: 11/19/2023] Open
Abstract
Deudorix livia (Klug, 1834) (Lepidoptera: Lycaenidae) is one of the most serious lepidopteran insect pests attacking pomegranate fruit around the world, including Egypt (Assiut Governorate, Upper Egypt). To create an effective program (IPM) to control such harmful pests, accurate identification of the pest morphology and genetic structure is essential. Studies on the morphogenetics of this pest are scarce. So, the goal of this research is to identify it both morphologically and genetically. Pomegranate butterfly immature stages were collected from infested pomegranate fruits and reared in the laboratory until the adult's emergence. By using light and scanning electron microscopy, some morphological structures of males and females were studied. DNA was extracted from the legs of a pomegranate butterfly adult. Also, PCR was conducted by using the mitochondrial CO1 gene for sequencing and phylogenetic tests. The results show that the body scales are a mixture of dark and light gray on the dorsal side and white on the ventral side in both sexes. The average male body length (BL) was 11.674 ± 0.299 mm and was 11.458 ± 1.001 mm for the females. The wing venation is similar in both sexes. For the first time, a partial sequence of the mitochondrial CO1 gene in D. livia was deposited in GenBank (MW463927).
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Affiliation(s)
- Farouk A Abdel-Galil
- Plant Protection Department, Faculty of Agriculture, Assiut University, Assiut, 71526, Egypt.
| | - Sara E Mousa
- Plant Protection Department, Faculty of Agriculture, Assiut University, Assiut, 71526, Egypt
| | - Gaber H Abou-Elhagag
- Plant Protection Department, Faculty of Agriculture, Assiut University, Assiut, 71526, Egypt
| | - Ahmed M M Ahmed
- Plant Protection Department, Faculty of Agriculture, Assiut University, Assiut, 71526, Egypt
| | - Ammar Al-Farga
- Department of Biochemistry, College of Sciences, University of Jeddah, 21959, Jeddah, Saudi Arabia
| | - Mohammad Allam
- Department of Zoology, Faculty of Science, Luxor University, Luxor, Egypt
| | - Mervat A B Mahmoud
- Zoology Department, Faculty of Science, South Valley University, Qena, Egypt
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Suresh E, Rathipriya A, Shanmugam SA, Hamsavalli R, Kathirvelpandian A. Character-based diagnostic keys, molecular identification and phylogenetic relationships of threadfin breams (family: Nemipteridae) based on mitochondrial genes from the Southern coromandel Coast, India. Anim Biotechnol 2023; 34:1553-1565. [PMID: 35259071 DOI: 10.1080/10495398.2022.2040522] [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] [Indexed: 11/01/2022]
Abstract
DNA barcoding, primarily focusing on cytochrome c oxidase subunit I (COI) gene has been appraised as an effective tool for species identification. In this study, we focused on the marine fishes of Family Nemipteridae, one of the commercially important group distributed within the Coromandel Coast. The Partial sequences of COI and 16S rRNA of mitochondrial genes were analyzed for species identification and phylogenetic relationship of Nemipterus species (Nemipterus japonicus, Nemipterus peronii, Nemipterus bipunctatus, Nemipterus bathybius). Character-based identification approaches that categorize specimens to species using classification rules that compactly identify species in terms of key diagnostic nucleotides in selected gene sequences. Using the BLOG 2.0 software, species-specific diagnostic nucleotides were identified for the selected group of species. A data set of 198 mtCOI sequences was obtained from published resources and used to screen character-based molecular diagnostic keys for species in silico. Partial sequences of both the genes provided sufficient phylogenetic information to distinguish the four Nemipterus species indicating the usefulness of mtDNA-based approach in species identification. This study proves the use of mtDNA genes sequence-based approach is a support tool along with traditional taxonomy for identifying fish species at a faster pace.
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Affiliation(s)
- E Suresh
- Institute of Fisheries Postgraduate Studies, TNJFU OMR Campus, Vaniyanchavadi, Chennai, Tamil Nadu, India
| | - A Rathipriya
- Institute of Fisheries Postgraduate Studies, TNJFU OMR Campus, Vaniyanchavadi, Chennai, Tamil Nadu, India
| | - S A Shanmugam
- Institute of Fisheries Postgraduate Studies, TNJFU OMR Campus, Vaniyanchavadi, Chennai, Tamil Nadu, India
| | - R Hamsavalli
- Institute of Fisheries Postgraduate Studies, TNJFU OMR Campus, Vaniyanchavadi, Chennai, Tamil Nadu, India
| | - A Kathirvelpandian
- Institute of Fisheries Postgraduate Studies, TNJFU OMR Campus, Vaniyanchavadi, Chennai, Tamil Nadu, India
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Awas M, Ahmed I, Ahmad SM, Al-Anazi KM, Farah MA, Bhat B. Integrative approach for validation of six important fish species inhabiting River Poonch of north-west Himalayan region (India). Front Genet 2023; 13:1047436. [PMID: 36726718 PMCID: PMC9886096 DOI: 10.3389/fgene.2022.1047436] [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: 09/18/2022] [Accepted: 11/29/2022] [Indexed: 01/06/2023] Open
Abstract
Traditionally, species of fish are identified based on morphological characteristics. Although these taxonomic descriptions are essential, there are cases where the morphological characters distinguishing these species show marginal differences. For instance, in the Poonch River in the Himalayas, there are 21 species, out of which some are morphologically similar, and the taxonomic distinction between these species is unclear. Therefore, in this study, we used sequences from two mitochondrial genes, Cytochrome b (Cyt b) and a larger ribosomal subunit (16S rRNA), as well as the morphological analysis to address any taxonomic ambiguities among the six fish species. Maximum Likelihood results revealed that all the species were clustered according to their families and genera. The phenotypic analysis also supported this statement, as all the species of different genera like Schizothorax, Tor, Garra, Traqilabeo, and Glyptothorax are grouped in their particular cluster, it shows that species of a separate class share a mutual morphological characteristic. While genetic analyses of these species suggest nucleotide diversity (p) and haplotype diversity, with Hd values as 0.644 for Cyt b and 0.899 for 16S rRNA, confirming the rich genetic diversity in the river. Overall, we recommend that the integrative approach in delimiting the fish species is more effective than the individual one and can be used to rapidly diagnose a species and understand the evolutionary relationship between the species.
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Affiliation(s)
- Mohd Awas
- Fish Nutrition Laboratory, Department of Zoology, University of Kashmir, Srinagar, India
| | - Imtiaz Ahmed
- Fish Nutrition Laboratory, Department of Zoology, University of Kashmir, Srinagar, India
| | - Syed Mudasir Ahmad
- Division of Animal Biotechnology, Faculty of Veterinary Sciences and Animal Husbandry, Sher-e-Kashmir University of Agricultural Sciences and Technology, Srinagar, India
| | | | - Mohammad Abul Farah
- Department of Zoology, College of Science, King Saud University, Riyadh, Saudi Arabia
| | - Basharat Bhat
- Division of Animal Biotechnology, Faculty of Veterinary Sciences and Animal Husbandry, Sher-e-Kashmir University of Agricultural Sciences and Technology, Srinagar, India
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Rathipriya A, Karal Marx K, Jeyashakila R. Molecular identification and phylogenetic relationship of flying fishes of Tamil Nadu coast for fishery management purposes. Mitochondrial DNA A DNA Mapp Seq Anal 2019; 30:500-510. [PMID: 30691341 DOI: 10.1080/24701394.2018.1558220] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/27/2022]
Abstract
The partial sequences of cytochrome c oxidase subunit I (COI) mitochondrial gene were analysed for developing species specific molecular signatures and phylogenetic relationship among the commercially important flying fishes (Cheilopogon cyanopterus, Cheilopogon furcatus and Hirundichthys coromandelensis) distributed in Tamil Nadu coast. Accurate identification of these species is important for fishery management as its morphological characters are very similar. Since the morphological features are very similar, accurate identification using molecular tools is essential for sustainable utilization and management of these species across their distributional range. The estimated transition/transversion bias (R) is 3.45. The average nucleotide sequences calculated were A = 30.00%, T/U = 26.40%, C = 17.00% and G = 26.60%. Using COI data analysis, the intraspecies genetic distance ranged from 0.00 to 0.05, while it varied from 0.06 to 0.08 for interspecies. Partial sequences of the genes provided sufficient phylogenetic information to distinguish the three flying fishes indicating the usefulness of mtDNA-based approach in species identification.
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Affiliation(s)
- A Rathipriya
- a Tamil Nadu Dr. J. Jayalalithaa Fisheries University , Nagapattinam , India
| | - K Karal Marx
- b Institute of Postgraduate Studies, OMR Campus , Chennai , India
| | - R Jeyashakila
- c Fisheries College and Research Institute , Thoothukudi , India
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Basheer VS, Vineesh N, Bineesh KK, Kumar RG, Mohitha C, Venu S, Kathirvelpandian A, Gopalakrishnan A, Jena JK. Mitochondrial signatures for identification of grouper species from Indian waters. Mitochondrial DNA A DNA Mapp Seq Anal 2016; 28:451-457. [PMID: 27159687 DOI: 10.3109/19401736.2015.1137899] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
Groupers are important commercial fish in many parts of the world. Accurate identification is critical for effective conservation assessment and fisheries management. Genetic barcodes provide a simple and reproducible method for the identification of species even in the absence of taxonomic expertise. The generation of reference barcodes from properly identified specimens is an important first step in this direction. Here, 36 species belonging to the subfamily Epinephelinae (Family: Serranidae) were collected from landings on the west coast of India and Port Blair, Andaman, and partial nucleotide sequence data of the mitochondrial cytochrome C oxidase subunit I (COI) gene was generated. Barcodes for 13 species were developed from Indian waters for the first time. Analysis using the COI gene produced phylogenetic trees in concurrence with other multi-gene studies. Epinephelus fasciatus and E. areolatus were found to be a species complex, as hypothesized in other studies. The DNA barcodes developed in the study can be used for identifying species within Epinehelinae, where taxonomic ambiguity still exists.
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Affiliation(s)
- V S Basheer
- a National Bureau of Fish Genetic Resources, PMFGR Centre , CMFRI Campus, Ernakulam North , Kochi , Kerala , India
| | - N Vineesh
- a National Bureau of Fish Genetic Resources, PMFGR Centre , CMFRI Campus, Ernakulam North , Kochi , Kerala , India
| | - K K Bineesh
- a National Bureau of Fish Genetic Resources, PMFGR Centre , CMFRI Campus, Ernakulam North , Kochi , Kerala , India
| | - Rahul G Kumar
- a National Bureau of Fish Genetic Resources, PMFGR Centre , CMFRI Campus, Ernakulam North , Kochi , Kerala , India
| | - C Mohitha
- a National Bureau of Fish Genetic Resources, PMFGR Centre , CMFRI Campus, Ernakulam North , Kochi , Kerala , India
| | - S Venu
- b Department of Ocean Studies & Marine Biology Brookshabad Campus , Pondicherry University , Junglighat , PortBlair , Andamans , India
| | - A Kathirvelpandian
- a National Bureau of Fish Genetic Resources, PMFGR Centre , CMFRI Campus, Ernakulam North , Kochi , Kerala , India
| | - A Gopalakrishnan
- c Central Marine Fisheries Research Institute , Ernakulam North , Kochi , Kerala , India
| | - J K Jena
- d National Bureau of Fish Genetic Resources , Dilkusha , Lucknow , India
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