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Morilhas Simões S, Caetano Costa R, Lopes Carvalho F, Carvalho-Batista A, de Souza Alves Teodoro S, Mantelatto FL. Genetic variation and cryptic lineage among the sergestid shrimp Acetes americanus (Decapoda). PeerJ 2023; 11:e14751. [PMID: 36815990 PMCID: PMC9933772 DOI: 10.7717/peerj.14751] [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: 08/01/2022] [Accepted: 12/27/2022] [Indexed: 02/15/2023] Open
Abstract
The taxonomic status of the sergestid shrimp, Acetes americanus, has been questioned for several decades. No specific study has been performed thus far to resolve the incongruences. This species has a wide geographical range in the western Atlantic and is represented by two formally accepted subspecies: Acetes americanus carolinae, distributed in North America, and Acetes americanus americanus, present in South America. However, there are regions where the coexistence of both subspecies has been reported, such as Central America. This study aimed to genetically compare specimens of A. a. americanus collected in South America with A. a. carolinae sampled in North America to check for possible differences and the existence of more than one subspecies of A. americanus on the Brazilian coast. Based on the sequences of two informative markers, the cytochrome oxidase I region (COI) and 16S rRNA, phylogenetic reconstruction demonstrated well-defined clades with high support values, reinforcing the idea that A. a. americanus is genetically different from A. a. carolinae. Our hypothesis was corroborated as the specimens collected in Brazil were divided into two distinct lineages: the first composed of A. a. americanus sensu stricto (Brazil 1) and the second by Acetes americanus (Brazil 2). The three groups evidenced in the haplotype network were the same as those observed in the phylogenetic tree. The morphometric character (height/length of the thelycum) was effective in distinguishing A. a. Brazil 1 from A. a. carolinae. However, more detailed and conclusive studies comprising other characteristics to propose and describe a possible new entity are necessary. To the best of our knowledge, for the first time, the results of this study provide some insights into the taxonomic status of the sergestid shrimp A. americanus in the western Atlantic.
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Affiliation(s)
- Sabrina Morilhas Simões
- Department of Biological Sciences, Faculty of Sciences, University of State of São Paulo (UNESP), Bauru, São Paulo, Brazil,Department of Biology, Faculty of Philosophy, Science and Letters at Ribeirao Preto (FFCLRP), University of São Paulo (USP), Ribeirão Preto, São Paulo, Brazil
| | - Rogério Caetano Costa
- Department of Biological Sciences, Faculty of Sciences, University of State of São Paulo (UNESP), Bauru, São Paulo, Brazil
| | | | | | | | - Fernando L. Mantelatto
- Department of Biology, Faculty of Philosophy, Science and Letters at Ribeirao Preto (FFCLRP), University of São Paulo (USP), Ribeirão Preto, São Paulo, Brazil
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2
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Moraes ABDE, DE Moraes DCS, Alencar CERD, Freire FAM. Native and non-native species of Litopenaeus Pérez-Farfante, 1969 (Crustacea: Penaeidae) from the East Atlantic: Geometric morphometrics as a tool for taxonomic discrimination. AN ACAD BRAS CIENC 2021; 93:e20200107. [PMID: 34231756 DOI: 10.1590/0001-3765202120200107] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2020] [Accepted: 10/25/2020] [Indexed: 11/21/2022] Open
Abstract
The shape of the secondary sexual characters is, traditionally, used to discriminate the marine shrimps at the species level. However, the qualitative evaluation of structures that are morphologically variable in the taxonomy of species can favor misunderstandings and misidentifications. These possibilities of taxonomic inaccuracies are especially alarming when there is a need to evaluate the invasion of introduced species. The present study used geometric morphometric analyses to identify differences in the cephalothorax shape that would help discriminate the native and non-native species of Litopenaeus of the South American coast. The comparative morphology analysis was conducted using the right profile of adult males' cephalothorax of L. schmitti, captured in the natural environment, and L. vannamei captured in the natural environment or grown in shrimp farms. In intraspecific evaluation, it was not possible to distinguish the specimens of L. vannamei that were grown in shrimp farms from those acclimated to the natural environment. However, significant interspecific differences in shape were found in the shape of this body structure. Additionally, the base position of the first rostral spine to the tip of the hepatic spine is indicated as a characteristic that can be used to distinguish these two species by eye in the field.
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Affiliation(s)
- Alex B DE Moraes
- Universidade Federal do Rio Grande do Norte, Departamento de Botânica e Zoologia, Laboratório de Biologia, Ecologia e Evolução de Crustáceos (LABEEC), Campus Universitário Lagoa Nova, Caixa Postal 1524, 59072-970 Natal, RN, Brazil
| | - Daniele C S DE Moraes
- Universidade Federal do Rio Grande do Norte, Departamento de Botânica e Zoologia, Laboratório de Biologia, Ecologia e Evolução de Crustáceos (LABEEC), Campus Universitário Lagoa Nova, Caixa Postal 1524, 59072-970 Natal, RN, Brazil
| | - Carlos Eduardo R D Alencar
- Universidade Federal do Rio Grande do Norte, Departamento de Botânica e Zoologia, Laboratório de Biologia, Ecologia e Evolução de Crustáceos (LABEEC), Campus Universitário Lagoa Nova, Caixa Postal 1524, 59072-970 Natal, RN, Brazil.,Universidade Regional do Cariri, Departamento de Ciências Biológicas, Laboratório de Crustáceos do Semiárido (LACRUSE), Rua Cel. Antônio Luiz, 1161, 63105-000 Crato, CE, Brazil
| | - Fúlvio A M Freire
- Universidade Federal do Rio Grande do Norte, Departamento de Botânica e Zoologia, Laboratório de Biologia, Ecologia e Evolução de Crustáceos (LABEEC), Campus Universitário Lagoa Nova, Caixa Postal 1524, 59072-970 Natal, RN, Brazil
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Katneni VK, Shekhar MS, Jangam AK, Paran BC, Selvaraj A, Krishnan K, Kaikkolante N, Prabhudas SK, Gopalapillai G, Koyadan VK. Phylogenetic relations and mitogenome-wide similarity metrics reveal monophyly of Penaeus sensu lato. Ecol Evol 2021; 11:2040-2049. [PMID: 33717440 PMCID: PMC7920775 DOI: 10.1002/ece3.7148] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/03/2020] [Revised: 11/24/2020] [Accepted: 12/10/2020] [Indexed: 11/24/2022] Open
Abstract
Splitting of the genus Penaeus sensu lato into six new genera based on morphological features alone has been controversial in penaeid shrimp taxonomy. Several studies focused on building phylogenetic relations among the genera of Penaeus sensu lato. However, they lack in utilizing full mitochondrial DNA genome of shrimp representing all the six controversial genera. For the first time, the present study targeted the testing of all the six genera of Penaeus sensu lato for phylogenetic relations utilizing complete mitochondrial genome sequence. In addition, the study reports for the first time about the complete mitochondrial DNA genome sequence of Fenneropenaeus indicus, an important candidate species in aquaculture and fisheries, and utilized it for phylogenomics. The maximum likelihood and Bayesian approaches were deployed to generate and comprehend the phylogenetic relationship among the shrimp in the suborder, Dendrobranchiata. The phylogenetic relations established with limited taxon sampling considered in the study pointed to the monophyly of Penaeus sensu lato and suggested collapsing of the new genera to a single genus. Further, trends in mitogenome-wide estimates of average amino acid identity in the order Decapoda and the genus Penaeus sensu lato supported restoration of the old genus, Penaeus, rather promoting the creation of new genera.
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Affiliation(s)
- Vinaya Kumar Katneni
- Nutrition Genetics and Biotechnology DivisionICAR‐Central Institute of Brackishwater AquacultureChennaiIndia
| | - Mudagandur S. Shekhar
- Nutrition Genetics and Biotechnology DivisionICAR‐Central Institute of Brackishwater AquacultureChennaiIndia
| | - Ashok Kumar Jangam
- Nutrition Genetics and Biotechnology DivisionICAR‐Central Institute of Brackishwater AquacultureChennaiIndia
| | | | - Ashok Selvaraj
- Nutrition Genetics and Biotechnology DivisionICAR‐Central Institute of Brackishwater AquacultureChennaiIndia
| | - Karthic Krishnan
- Nutrition Genetics and Biotechnology DivisionICAR‐Central Institute of Brackishwater AquacultureChennaiIndia
| | - Nimisha Kaikkolante
- Nutrition Genetics and Biotechnology DivisionICAR‐Central Institute of Brackishwater AquacultureChennaiIndia
| | - Sudheesh K. Prabhudas
- Nutrition Genetics and Biotechnology DivisionICAR‐Central Institute of Brackishwater AquacultureChennaiIndia
| | - Gopikrishna Gopalapillai
- Nutrition Genetics and Biotechnology DivisionICAR‐Central Institute of Brackishwater AquacultureChennaiIndia
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Hurzaid A, Chan T, Mohd Nor SA, Muchlisin ZA, Chen W. Molecular phylogeny and diversity of penaeid shrimps (Crustacea: Decapoda) from South‐East Asian waters. ZOOL SCR 2020. [DOI: 10.1111/zsc.12428] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Amirah Hurzaid
- Institute of Oceanography National Taiwan University Taipei Taiwan
- Biological Sciences Department School of Distance Education Universiti Sains Malaysia Penang Malaysia
| | - Tin‐Yam Chan
- Institute of Marine Biology and Center of Excellence for the Oceans National Taiwan Ocean University Keelung Taiwan
| | - Siti Azizah Mohd Nor
- Institute of Marine Biotechnology Universiti Malaysia Terengganu Kuala Terengganu Malaysia
| | | | - Wei‐Jen Chen
- Institute of Oceanography National Taiwan University Taipei Taiwan
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Timm L, Browder JA, Simon S, Jackson TL, Zink IC, Bracken-Grissom HD. A tree money grows on: the first inclusive molecular phylogeny of the economically important pink shrimp (Decapoda : Farfantepenaeus) reveals cryptic diversity. INVERTEBR SYST 2019. [DOI: 10.1071/is18044] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
Species of Farfantepenaeus support economically important shrimp fisheries throughout the Western Hemisphere, necessitating proper fisheries management. To be effective, species management should be informed of the potential presence of cryptic species and of the evolutionary forces driving biodiversity. This is best accomplished through a robust phylogenetic framework and evidence-based species delimitation. This study represents the first comprehensive molecular phylogeny and species delimitation analyses of shrimps belonging to the genus Farfantepenaeus. Targeting three mitochondrial genes (12S, 16S, and COI), gene trees and a phylogeny for the genus were inferred using maximum likelihood and Bayesian approaches. In general, the phylogenetic relationships inferred here largely agree with those recovered from morphological data, including the most recent designation of F. isabelae as sister to F. subtilis. Molecular divergence was found between northern and southern populations of F. brasiliensis, suggesting the existence of unrecognised subspecies. However, previous recognition of F. duorarum and F. notialis as two distinct species was not supported by this study. The phylogeny inferred here also uncovers a phylogeographic signal of latitudinal speciation in the genus. The study presented here provides valuable insight into the evolutionary history of Farfantepenaeus, improving our ability to effectively manage these economically important species.
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6
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Morphometrics and Mitochondrial DNA Genes Analysis Suggest a New Species of Penaeus (Crustacea: Penaeidae) from the Persian Gulf. Biochem Genet 2018; 57:193-213. [DOI: 10.1007/s10528-018-9884-3] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/14/2018] [Accepted: 08/02/2018] [Indexed: 10/28/2022]
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7
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Camargo TR, Rossi N, Castilho AL, Costa RC, Mantelatto FL, Zara FJ. Sperm ultrastructure of shrimps from the family Penaeidae (Crustacea: Dendrobranchiata) in a phylogenetic context. ARTHROPOD STRUCTURE & DEVELOPMENT 2017; 46:588-600. [PMID: 28163192 DOI: 10.1016/j.asd.2017.01.006] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/25/2016] [Revised: 09/04/2016] [Accepted: 01/30/2017] [Indexed: 06/06/2023]
Abstract
We describe the sperm ultrastructure of six penaeid species, including at least one member of each tribe (Penaeini, Parapenaeini and Trachypenaeini). Fragments of the vas deferens of the Penaeidae Farfantepenaeus brasiliensis, Farfantepenaeus paulensis, Litopenaeus schmitti, Parapenaeus americanus, Rimapenaeus constrictus and Xiphopenaeus kroyeri were fixed and processed according to the routine for transmission electron microscopy. The morphological results were contextualized in an evolutionary perspective using molecular markers for the phylogenetic reconstruction of this group. A phylogram was proposed by Bayesian inference based on 1007 bp of 33 sequences of the combined genes (16S rDNA and COI mtDNA) from 27 dendrobranchiate specimens. Our findings show that morphological differences in the sperm ultrastructures of members among the tribes of Penaeidae can be used as a baseline to understand their evolutionary relationships. Individuals from the Penaeini tribe show plesiomorphic characteristics in the sperm ultrastructure compared to the Trachypenaeini tribe from which they were derived, such as shrimp from family Sicyoniidae. The morphological complexity of the sperm of the different penaeid members corroborated with the genetic phylogeny, which showed different clades for each tribe and the close relationship with Sicyoniidae. The sperm features of the selected species studied here reflected their evolutionary history. These features confirm the previous phylogenetic hypothesis and question the monophyly of Penaeidae, which should be verified in the future with a more complete set of representative members of each tribe.
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Affiliation(s)
- Tavani Rocha Camargo
- Laboratório de Morfologia de Invertebrados (IML), Departamento de Biologia Aplicada, CAUNESP and IEAMar, Universidade Estadual Paulista (UNESP), FCAV, Jaboticabal, SP, Brazil.
| | - Natalia Rossi
- Laboratório de Bioecologia e Sistemática de Crustáceos (LBSC), Departamento de Biologia, Faculdade de Filosofia, Ciências e Letras de Ribeirão Preto (FFCLRP), Universidade de São Paulo (USP), Av. Bandeirantes, 3900, 14040-901, Ribeirão Preto, SP, Brazil; Instituto de Ciências Biológicas (ICB), Universidade Federal de Goiás, Av. Esperança, s/n, Campus Samambaia (Campus II) ICB 01: sala -18, 74690-900, Goiânia, GO, Brazil
| | - Antonio L Castilho
- Laboratório de Carcinologia, Departamento de Zoologia, Instituto de Biociências, Universidade Estadual Paulista (UNESP), Distrito de Rubião Júnior, S/N, 18618-970, Botucatu, SP, Brazil
| | - Rogério C Costa
- Laboratório de Biologia de Camarões Marinhos e de Água Doce (LABCAM), Departamento de Ciências Biológicas, Faculdade de Ciências, Universidade Estadual Paulista (UNESP), Av. Luiz Edmundo Carrijo Coube n° 14-01, Bairro Vargem Limpa, 17033-360, Bauru, SP, Brazil
| | - Fernando L Mantelatto
- Laboratório de Bioecologia e Sistemática de Crustáceos (LBSC), Departamento de Biologia, Faculdade de Filosofia, Ciências e Letras de Ribeirão Preto (FFCLRP), Universidade de São Paulo (USP), Av. Bandeirantes, 3900, 14040-901, Ribeirão Preto, SP, Brazil
| | - Fernando José Zara
- Laboratório de Morfologia de Invertebrados (IML), Departamento de Biologia Aplicada, CAUNESP and IEAMar, Universidade Estadual Paulista (UNESP), FCAV, Jaboticabal, SP, Brazil
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8
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Zhang D, Gong F, Liu T, Guo H, Zhang N, Zhu K, Jiang S. Shotgun assembly of the mitochondrial genome from Fenneropenaeus penicillatus with phylogenetic consideration. Mar Genomics 2015; 24 Pt 3:379-86. [PMID: 26429699 DOI: 10.1016/j.margen.2015.09.005] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/06/2015] [Revised: 08/26/2015] [Accepted: 09/15/2015] [Indexed: 11/25/2022]
Abstract
The complete mitochondrial genome is of great importance for better understanding of the genome-level characteristics and phylogenetic relationships among related species. In this study, Fenneropenaeus penicillatus mitochondrial genome sequence was determined by next-generation sequencing. The complete genome DNA was 16,040 bp in length and consisted of a typical set of 13 protein-coding genes, 22 transfer RNA (tRNA) genes, two ribosomal RNA (rRNA) genes and a putative control region (CR). The gene arrangement is identical to the pancrustacean pattern. The overall base composition of its mitochondrial genome is estimated to be 34.1% for A, 34.1% for T, 12.5% for G and 19.3% for C with a high A+T content (68.2%). The analysis of the average Ka/Ks in the 13 mitochondrial protein-coding genes of penaeid shrimps indicated a strong purifying selection within this group. The phylogenetic analysis based on mitochondrial sequences and 13 concatenated protein-coding genes showed strong statistic support for the following relationship among the five genera ((Penaeus s.s+Fenneropenaeus)+(Litopenaeus+Farfantepenaeus))+Marsupenaeus. The sequence data of F. penicillatus can provide useful information for the studies on molecular systematics, population structure, stock evaluation and conservation genetics.
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Affiliation(s)
- Dianchang Zhang
- Key Laboratory of South China Sea Fishery Research Exploitation and Utilization, Ministry of Agriculture, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China.
| | - Fahui Gong
- Key Laboratory of South China Sea Fishery Research Exploitation and Utilization, Ministry of Agriculture, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China; College of Fisheries and Life, Shanghai Ocean University, Shanghai; 201306, China
| | - Tiantian Liu
- Key Laboratory of South China Sea Fishery Research Exploitation and Utilization, Ministry of Agriculture, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China; College of Fisheries and Life, Shanghai Ocean University, Shanghai; 201306, China
| | - Huayang Guo
- Key Laboratory of South China Sea Fishery Research Exploitation and Utilization, Ministry of Agriculture, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Nan Zhang
- Key Laboratory of South China Sea Fishery Research Exploitation and Utilization, Ministry of Agriculture, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Kecheng Zhu
- Key Laboratory of South China Sea Fishery Research Exploitation and Utilization, Ministry of Agriculture, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China
| | - Shigui Jiang
- Key Laboratory of South China Sea Fishery Research Exploitation and Utilization, Ministry of Agriculture, South China Sea Fisheries Research Institute, Chinese Academy of Fishery Sciences, Guangzhou 510300, China.
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Zhang D, Liu T, Gong F, Jiang S. Shotgun assembly of the first mitochondrial genome of Metapenaeus (Metapenaeus ensis) with phylogenetic consideration. Mitochondrial DNA A DNA Mapp Seq Anal 2015; 27:3689-90. [PMID: 26355746 DOI: 10.3109/19401736.2015.1079857] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/13/2022]
Abstract
The first complete mitochondrial genome sequence of Metapenaeus was characterized from sand shrimp Metapenaeus ensis using shotgun assembly method. The complete mitochondrial DNA sequence is a 15 944 bp circular molecule, and contains 13 protein-coding genes, 22 transfer RNA genes, two rRNA genes, and a control region. The gene arrangements are consistent with the pancrustacean ground pattern. The phylogenetic trees were divided two clades besides outgroup, which belonged to Penaeus s.l. and Metapenaeus genus. The molecular analyses provided robust evidence for the monophyly of Fenneropenaeus, but Litopenaeus is not monophyletic.
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Affiliation(s)
- Dianchang Zhang
- a Key Laboratory of South China Sea Fishery Research Exploitation & Utilization, Ministry of Agriculture, South China Sea Fisheries Research institute, Chinese Academy of Fishery sciences , Guangzhou , China
| | - Tiantian Liu
- a Key Laboratory of South China Sea Fishery Research Exploitation & Utilization, Ministry of Agriculture, South China Sea Fisheries Research institute, Chinese Academy of Fishery sciences , Guangzhou , China
| | - Fahui Gong
- a Key Laboratory of South China Sea Fishery Research Exploitation & Utilization, Ministry of Agriculture, South China Sea Fisheries Research institute, Chinese Academy of Fishery sciences , Guangzhou , China
| | - Shigui Jiang
- a Key Laboratory of South China Sea Fishery Research Exploitation & Utilization, Ministry of Agriculture, South China Sea Fisheries Research institute, Chinese Academy of Fishery sciences , Guangzhou , China
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Ortea I, Pascoal A, Cañas B, Gallardo JM, Barros-Velázquez J, Calo-Mata P. Food authentication of commercially-relevant shrimp and prawn species: From classical methods to Foodomics. Electrophoresis 2012; 33:2201-11. [DOI: 10.1002/elps.201100576] [Citation(s) in RCA: 53] [Impact Index Per Article: 4.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/07/2022]
Affiliation(s)
- Ignacio Ortea
- Department of Food Technology; Institute for Marine Research; Spanish National Research Council (CSIC); Vigo; Spain
| | - Ananías Pascoal
- Department of Analytical Chemistry; Nutrition and Food Science, School of Veterinary Sciences/College of Biotechnology; University of Santiago de Compostela; Lugo; Spain
| | - Benito Cañas
- Department of Analytical Chemistry; University Complutense of Madrid; Madrid; Spain
| | - José M. Gallardo
- Department of Food Technology; Institute for Marine Research; Spanish National Research Council (CSIC); Vigo; Spain
| | - Jorge Barros-Velázquez
- Department of Analytical Chemistry; Nutrition and Food Science, School of Veterinary Sciences/College of Biotechnology; University of Santiago de Compostela; Lugo; Spain
| | - Pilar Calo-Mata
- Department of Analytical Chemistry; Nutrition and Food Science, School of Veterinary Sciences/College of Biotechnology; University of Santiago de Compostela; Lugo; Spain
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11
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Pascoal A, Ortea I, Gallardo JM, Cañas B, Barros-Velázquez J, Calo-Mata P. Species identification of the Northern shrimp (Pandalus borealis) by polymerase chain reaction-restriction fragment length polymorphism and proteomic analysis. Anal Biochem 2011; 421:56-67. [PMID: 22080038 DOI: 10.1016/j.ab.2011.10.029] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/20/2011] [Revised: 10/15/2011] [Accepted: 10/17/2011] [Indexed: 10/16/2022]
Abstract
Genomic and proteomic techniques for species identification of meat and seafood products are being widely used. In this study, a genomic approach was used to differentiate Pandalus borealis (the Northern shrimp), which belongs to the superfamily Pandaloidea, from 30 crustaceans consisting of 19 commercially relevant prawns/shrimps species that belong to the superfamily Penaeoidea, which include the families Penaeidae and Solenoceridae, and 11 other crustacean species, including prawns, shrimps, lobsters, and crabs. For this purpose, a polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) method was designed based on the amplification of the 16S rRNA/tRNA(Val)/12S rRNA mitochondrial regions using the primers 16S-CruF and 16S-CruR. The 966-bp PCR products were produced and cleaved with the restriction enzymes AluI, TaqI, and HinfI, which provided species-specific restriction patterns. In addition, a proteomic approach, based on matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) and electrospray ionization-ion trap (ESI-IT) mass spectrometry, was used to identify and characterize new P. borealis-specific peptides that could be useful as potential markers of this species in protein-based detection methods. To our knowledge, this is the first time a molecular method has been successfully applied to identify a wide range of prawn and shrimp species, including P. borealis, for either whole individuals or processed products. However, validation of the methods proposed here is required by applying them to a larger sample of individuals from different populations and geographic origins in order to avoid mainly false-negative results.
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Affiliation(s)
- Ananias Pascoal
- Department of Analytical Chemistry, Nutrition, and Food Science, School of Veterinary Sciences, University of Santiago de Compostela, E-27002 Lugo, Spain
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12
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Ma KY, Chan TY, Chu KH. Refuting the six-genus classification of Penaeus s.l. (Dendrobranchiata, Penaeidae): a combined analysis of mitochondrial and nuclear genes. ZOOL SCR 2011. [DOI: 10.1111/j.1463-6409.2011.00483.x] [Citation(s) in RCA: 38] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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13
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Molecular identification of the black tiger shrimp (Penaeus monodon), the white leg shrimp (Litopenaeus vannamei) and the Indian white shrimp (Fenneropenaeus indicus) by PCR targeted to the 16S rRNA mtDNA. Food Chem 2011. [DOI: 10.1016/j.foodchem.2010.10.053] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
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14
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Alvarado Bremer JR, Ditty JG, Turner JS, Saxton BL. Molecular species identification of commercially important penaeid shrimp from the Gulf of Mexico using a multiplex haplotype-specific PCR assay. BIOCHEM SYST ECOL 2010. [DOI: 10.1016/j.bse.2010.05.006] [Citation(s) in RCA: 17] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
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15
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Identification of commercial prawn and shrimp species of food interest by native isoelectric focusing. Food Chem 2010. [DOI: 10.1016/j.foodchem.2009.12.049] [Citation(s) in RCA: 39] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
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16
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Ortea I, Cañas B, Gallardo JM. Mass spectrometry characterization of species-specific peptides from arginine kinase for the identification of commercially relevant shrimp species. J Proteome Res 2010; 8:5356-62. [PMID: 19891510 DOI: 10.1021/pr900663d] [Citation(s) in RCA: 49] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/08/2023]
Abstract
The identification of commercial shrimp species is a relevant issue to ensure correct labeling, maintain consumer confidence and enhance the knowledge of the captured species, benefiting both, fisheries and manufacturers. A proteomic approach, based on 2DE, tryptic in-gel digestion, MALDI-TOF MS, and ESI-MS/MS analyses, is proposed for the identification of shrimp species with commercial interest. MALDI-TOF peptide mass fingerprint from arginine kinase tryptic digests were used for the identification of seven commercial, closely related species of Decapoda shrimps. Further identification and characterization of these peptides was performed by CID on an ESI-IT instrument, database search and de novo sequence interpretation, paying special attention to differential, species-specific peptides. Fisheries and manufacturers may take advantage of this methodology as a tool for a rapid and effective seafood product identification and authentication, providing and guaranteeing the quality and safety of the foodstuffs to consumers.
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Affiliation(s)
- Ignacio Ortea
- Marine Research Institute, Spanish National Research Council (CSIC), Eduardo Cabello 6, E-36208 Vigo, Spain.
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17
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Ortea I, Cañas B, Calo-Mata P, Barros-Velázquez J, Gallardo JM. Arginine kinase peptide mass fingerprinting as a proteomic approach for species identification and taxonomic analysis of commercially relevant shrimp species. JOURNAL OF AGRICULTURAL AND FOOD CHEMISTRY 2009; 57:5665-5672. [PMID: 19489608 DOI: 10.1021/jf900520h] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/27/2023]
Abstract
A proteomic approach aimed at species identification and taxonomic analysis of shrimp species of commercial interest is presented. Six different species belonging to the order Decapoda were considered. Preliminary, two-dimensional gel electrophoresis (2-DE) analysis of the sarcoplasmic proteome revealed interspecific variability in the isoelectric point (pI) of arginine kinase. For this reason, arginine kinase spot was selected as a potential molecular marker and subjected to tryptic digestion followed by matrix-assisted laser desorption/ionization time-of-flight (MALDI-TOF) peptide mass fingerprinting (PMF) analysis. Arginine kinase PMF allowed the differentiation of the six species studied. Four samples of commercial origin obtained in local markets were analyzed to validate the methodology. The PMF cluster analysis also provided information about the phylogenetic relationships in these species. The application of this methodology may be of interest for the differentiation and taxonomic analysis of shrimp species complementing DNA-based phylogenetic studies.
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Affiliation(s)
- Ignacio Ortea
- Instituto de Investigaciones Marinas, Consejo Superior de Investigaciones Científicas, Vigo, Spain.
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18
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Ortea I, Barros L, Gallardo JM. Closely Related Shrimp Species Identification by MALDI-ToF Mass Spectrometry. JOURNAL OF AQUATIC FOOD PRODUCT TECHNOLOGY 2009. [DOI: 10.1080/10498850802584280] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 02/06/2023]
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19
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Dharani G, Maitrayee GA, Karthikayalu S, Kumar TS, Anbarasu M, Vijayakumaran M. Identification of Panulirus homarus puerulus larvae by restriction fragment length polymorphism of mitochondrial cytochrome oxidase I gene. Pak J Biol Sci 2009; 12:281-5. [PMID: 19579959 DOI: 10.3923/pjbs.2009.281.285] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
Abstract
Molecular identification of puerulus larvae of Panulirus homarus of the genus Panulirus from Indian coast was studied by employing Polymerase Chain Reaction, Restriction Fragment Length Polymorphism (PCR-RFLP) analysis of the mitochondrial DNA (mtDNA) Cytochrome Oxidase Gene (COI) by agarose gel electrophoresis and Denaturing Gradient Gel Electrophoresis (DGGE). The size of amplified fragment of COI gene was estimated to be approximately 1300 base pairs (bp). Single fragment amplification was recorded during different stages of the life cycle. The RFLP digestion was carried out using five different restriction enzymes (BsplI, HhaI, RsaI, TaqI and AluI). The RFLP profile of the different endonucleases, varied between 1-5 restriction types. RFLP analysis using endonuclease TaqI enabled identification of P. homarus during different stages of its life history.
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Affiliation(s)
- G Dharani
- Ocean Science and Technology for Islands, National Institute of Ocean Technology, Pallikarani, Chennai-600 100, India
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20
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Mitochondrial DNA variation in the caramote prawn Penaeus (Melicertus) kerathurus across a transition zone in the Mediterranean Sea. Genetica 2008; 136:439-47. [PMID: 19109695 DOI: 10.1007/s10709-008-9344-9] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/13/2008] [Accepted: 12/06/2008] [Indexed: 10/21/2022]
Abstract
In this study we analysed mitochondrial DNA variation in Penaeus kerathurus prawns collected from seven locations along a transect across the Siculo-Tunisian region in order to verify if any population structuring exists over a limited geographical scale and to delineate the putative transition zone with sufficient accuracy. Partial DNA sequences of COI and 16S genes were analysed. In contrast to the highly conservative 16S gene, the COI sequences exhibited sufficient diversity for population analysis. The COI gene revealed low levels of haplotype and nucleotide diversities. The size of the annual landings of this commercial species suggests large population sizes. Hence, the low genetic diversity detected in this study could indicate a possible reduction in effective population sizes in the past. We detected significant genetic differentiation between eastern and western populations likely due to restricted gene flow across the Siculo-Tunisian boundary. We discuss the different evolutionary forces that may have shaped the genetic variation and suggest that the genetic divide is probably maintained by present-day dispersal limitation.
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21
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Peregrino-Uriarte AB, Varela-Romero A, Muhlia-Almazán A, Anduro-Corona I, Vega-Heredia S, Gutiérrez-Millán LE, De la Rosa-Vélez J, Yepiz-Plascencia G. The complete mitochondrial genomes of the yellowleg shrimp Farfantepenaeus californiensis and the blue shrimp Litopenaeus stylirostris (Crustacea: Decapoda). COMPARATIVE BIOCHEMISTRY AND PHYSIOLOGY D-GENOMICS & PROTEOMICS 2008; 4:45-53. [PMID: 20403743 DOI: 10.1016/j.cbd.2008.10.003] [Citation(s) in RCA: 12] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/04/2008] [Revised: 10/26/2008] [Accepted: 10/27/2008] [Indexed: 11/25/2022]
Abstract
Mitochondria play key roles in many cellular processes. Description of penaeid shrimp genes, including mitochondrial genomes are fairly recent and some are focusing on commercially important shrimp as the Pacific shrimp Litopenaeus vannamei that is being used for aquaculture not only in America, but also in Asia. Much less is known about other Pacific shrimp such as the yellowleg shrimp Farfantepenaeus californiensis and the blue shrimp Litopenaeus stylirostris. We report the complete mitogenomes from these last two Pacific shrimp species. Long DNA fragments were obtained by PCR and then used to get internal fragments for sequencing. The complete F. californiensis and L. stylirostris mtDNAs are 15,975 and 15,988 bp long, containing the 37 common sequences and a control region of 990 and 999 bp, respectively. The gene order is identical to that of the tiger shrimp Penaeus monodon. Secondary structures for the 22 tRNAs are proposed and phylogenetic relationships for selected complete crustacean mitogenomes are included. Phylogenomic relationships among five shrimp show strong statistical support for the monophyly of the genus across the analysis. Litopenaeus species define a clade, with close relationship to Farfantepenaeus, and both clade with the sister group of Penaeus and Fenneropenaeus.
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Affiliation(s)
- Alma B Peregrino-Uriarte
- Aquatic Molecular Biology Laboratory, Centro de Investigación en Alimentación y Desarrollo, A.C. Carretera a la Victoria Km 0.6. PO Box 1735, Hermosillo, Sonora 83000, México
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22
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Survey of the authenticity of prawn and shrimp species in commercial food products by PCR-RFLP analysis of a 16S rRNA/tRNAVal mitochondrial region. Food Chem 2008. [DOI: 10.1016/j.foodchem.2007.12.079] [Citation(s) in RCA: 37] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/24/2022]
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23
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Pascoal A, Barros-Velázquez J, Cepeda A, Gallardo JM, Calo-Mata P. Identification of shrimp species in raw and processed food products by means of a polymerase chain reaction-restriction fragment length polymorphism method targeted to cytochrome b mitochondrial sequences. Electrophoresis 2008; 29:3220-8. [DOI: 10.1002/elps.200800132] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/08/2022]
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24
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Pascoal A, Barros-Velázquez J, Cepeda A, Gallardo JM, Calo-Mata P. A polymerase chain reaction-restriction fragment length polymorphism method based on the analysis of a 16S rRNA/tRNAVal mitochondrial region for species identification of commercial penaeid shrimps (Crustacea: Decapoda: Penaeoidea) of food interest. Electrophoresis 2008; 29:499-509. [DOI: 10.1002/elps.200700406] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
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25
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Shen X, Ren J, Cui Z, Sha Z, Wang B, Xiang J, Liu B. The complete mitochondrial genomes of two common shrimps (Litopenaeus vannamei and Fenneropenaeus chinensis) and their phylogenomic considerations. Gene 2007; 403:98-109. [PMID: 17890021 DOI: 10.1016/j.gene.2007.06.021] [Citation(s) in RCA: 52] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/28/2007] [Revised: 06/18/2007] [Accepted: 06/29/2007] [Indexed: 01/28/2023]
Abstract
Complete mitochondrial genomes have proven extremely valuable in helping to understand the evolutionary relationships among metazoans. However, uneven taxon sampling may lead to unclear or even erroneous phylogenetic topologies. The decapod crustaceans are relatively well-sampled, but sampling is still uneven within this group. We have sequenced the mitochondrial genomes of two shrimps Litopenaeus vannamei and Fenneropenaeus chinensis. As seen in other metazoans, the genomes contain a standard set of 13 protein-coding genes, 22 transfer RNA genes, two ribosomal RNA genes and an AT-rich non-coding region. The gene arrangements are consistent with the pancrustacean ground pattern. Both the pattern of gene rearrangements and phylogenomic analyses using concatenated nucleic acid and amino acid sequences of the 13 mitochondrial protein-coding genes strengthened the support that Caridea and Palinura are primitive members of Pleocyemata. These sequences, in combination with two previously published penaeid mitochondrial genomes, suggest that genera within the family Penaeidae have the following relationship: (((Penaeus+Fenneropenaeus)+Litopenaeus)+Marsupenaeus). The analyses of nucleic acid and amino acid sequences of the mitochondrial genomes also strongly support the monophyly of Penaeidae, Brachyura and Pleocyemata. In addition, the analyses of the average Ka/Ks in the 13 mitochondrial protein-coding genes of penaeid shrimps indicated a strong purifying selection within this group.
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Affiliation(s)
- Xin Shen
- Institute of Oceanology, Chinese Academy of Sciences, Qingdao, 266071, China
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26
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Klinbunga S, Preechaphol R, Thumrungtanakit S, Leelatanawit R, Aoki T, Jarayabhand P, Menasveta P. Genetic diversity of the giant tiger shrimp (Penaeus monodon) in Thailand revealed by PCR-SSCP of polymorphic EST-derived markers. Biochem Genet 2006; 44:222-36. [PMID: 17028786 DOI: 10.1007/s10528-006-9027-0] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/23/2005] [Accepted: 11/29/2005] [Indexed: 10/24/2022]
Abstract
A total of 90 ESTs from normal and 157 from subtractive ovarian cDNA libraries of the giant tiger shrimp (Penaeus monodon) were sequenced. SSCP analysis of disulfide isomerase (DSl), zinc finger protein (ZFP), PMO920, and PMT1700 was carried out for population genetic studies of P. monodon in Thai waters. The number of codominant alleles per locus for overall samples was 6 for PMO920, 5 for PMT1700, and 12 for ZFP, and there were 19 dominant alleles for DSI. The observed heterozygosity of each geographic sample was 0.3043-0.5128 for PMO920, 0.3462-0.4643 for PMT1700, and 0.5000-0.8108 for ZFP. Linkage disequilibrium analysis indicated that genotypes of these loci segregate randomly (P > 0.05). Low genetic distance was found between pairs of geographic samples (0.0077-0.0178). The neighbor-joining tree constructed from the average genetic distance of overall loci allocated the Andaman samples (Satun, Trang, and Phangnga) into one cluster, and Chumphon and Trat into other clusters. Geographic differentiation between Satun-Trat and Satun-Phangnga was found only at the ZFP locus (P < 0.05), suggesting low degrees of genetic subdivision of Thai P. monodon.
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Affiliation(s)
- Sirawut Klinbunga
- Center of Excellence for Marine Biotechnology, Department of Marine Science, Faculty of Science, Chulalongkorn University, Bangkok, 10330, Thailand.
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27
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Hiller A, Kraus H, Almon M, Werding B. The Petrolisthes galathinus complex: species boundaries based on color pattern, morphology and molecules, and evolutionary interrelationships between this complex and other Porcellanidae (Crustacea: Decapoda: Anomura). Mol Phylogenet Evol 2006; 40:547-69. [PMID: 16684610 DOI: 10.1016/j.ympev.2006.03.030] [Citation(s) in RCA: 29] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/27/2005] [Revised: 03/17/2006] [Accepted: 03/17/2006] [Indexed: 11/30/2022]
Abstract
While the amphi-American porcellanid crab Petrolistes galathinus has been traditionally viewed as a highly variable species containing several different color forms, we consider it to be a complex of at least 6 morphologically similar species with similar ecological requirements, but diagnosable through coloration. Here we surveyed sequence variation of the mitochondrial 16S rRNA gene, compared the morphology of adults and of the first larval stage (Zoea I), and explored shape variation of the sternal plate using geometric morphometric methods, to investigate boundaries among the species in the complex, and to confirm the validity of color and color pattern for distinguishing them. Sequences and larval morphological characters of other porcellanids were included to investigate the correspondence between genetic divergence and morphology of adults and larvae. The molecular and morphometric results support the validity of the species in the complex, and of color pattern for their distinction. The close relationship between the complex and the putative ancenstral porcellanid Parapetrolisthes tortugensis was indicated by the molecular and larval-morphology results. The adult morphology of this species is interpreted as a result of convergent evolution driven by a relatively rapid ecological adaptation to conditions in deeper waters. The nesting position in the phylogenetic trees of Petrocheles australiensis outside the Porcellanidae clade questions the monophyly of this family.
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Affiliation(s)
- Alexandra Hiller
- Department of Animal Ecology and Systematic Zoology, Justus-Liebig University, Heinrich-Buff-Ring 26-32, 35392 Giessen, Germany.
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28
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Khamnamtong B, Klinbunga S, Menasveta P. Species identification of five penaeid shrimps using PCR-RFLP and SSCP analyses of 16S ribosomal DNA. BMB Rep 2005; 38:491-9. [PMID: 16053718 DOI: 10.5483/bmbrep.2005.38.4.491] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022] Open
Abstract
DNA-based molecular markers for differentiation of five penaeid shrimps (Penaeus monodon, P. semisulcatus, Feneropenaeus merguiensis, Litopenaeus vannamei and Marsupenaeus japonicus) were developed based on polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) and single-stranded conformation polymorphism (SSCP) of 16S ribosomal (r) DNA. Differentiation of P. monodon, P. semisulcatus and L. vannamei can be unambiguously carried out by PCRRFLP of 16S rDNA(560) whereas P. semisulcatus and M. japonicus shared a BABB mitotype. These shrimps were successfully discriminated by SSCP analysis of 16S rDNA(560). Nevertheless, the amplification success for L. vannamei and F. merguiensis was not consistent when tested against larger sample sizes. As a result, 16S rDNA(560) of an individual representing the most common mitotype of each species was cloned and sequenced. The new primer pair was designed and tested against the large sample sizes (312 bp product, N = 185). The amplification success was consistent across all species. PCR-RFLP of 16S rDNA(312) was as effective as that of 16S rDNA(560). Differentiation of all shrimp species were successfully carried out by SSCP analysis.
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Affiliation(s)
- Bavornlak Khamnamtong
- National Center for Genetic Engineering and Biotechnology, National Science and Technology Development Agency, 113 Paholyothin Rd., Klong 1, Klong Laung, Pathumthani 12120.
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29
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Brzezinski JL. Detection of crustacean DNA and species identification using a PCR-restriction fragment length polymorphism method. J Food Prot 2005; 68:1866-73. [PMID: 16161686 DOI: 10.4315/0362-028x-68.9.1866] [Citation(s) in RCA: 34] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/11/2022]
Abstract
The detection of potentially allergenic proteins, such as those derived from crustaceans, in food products is a major concern for the food processing industry. A PCR-restriction fragment length polymorphism (PCR-RFLP) method was designed to detect the presence of crustacean DNA in food products and to determine the species source of the DNA. This PCR assay amplifies an approximately 205-bp fragment of the 16S rRNA gene in crustacean species, including shrimp, crab, lobster, and crawfish. This reaction will not amplify DNA derived from mammals, such as cow and sheep. After amplification, the PCR product is digested with differential restriction endonucleases to determine the species source of the crustacean DNA. The specificity of this assay was demonstrated using four species of shrimp, three species of crab, and two species of lobster and crawfish. This assay is sensitive enough to detect crustacean DNA in a raw meat mixture containing <0.1% shrimp.
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Affiliation(s)
- Jennifer L Brzezinski
- U.S. Food and Drug Administration, Forensic Chemistry Center, 6751 Steger Drive, Cincinnati, Ohio 45237, USA.
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30
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Machordom A, Macpherson E. Rapid radiation and cryptic speciation in squat lobsters of the genus Munida (Crustacea, Decapoda) and related genera in the South West Pacific: molecular and morphological evidence. Mol Phylogenet Evol 2005; 33:259-79. [PMID: 15336662 DOI: 10.1016/j.ympev.2004.06.001] [Citation(s) in RCA: 59] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/18/2003] [Revised: 06/04/2004] [Indexed: 11/21/2022]
Abstract
Squat lobsters (genus Munida and related genera) are among the most diverse taxa of western Pacific crustaceans, though several features of their biology and phylogenetic relationships are unknown. This paper reports an extensive phylogenetic analysis based on mitochondrial DNA sequences (cytochrome c oxidase subunit I and 16S rRNA) and the morphology of 72 species of 12 genera of western Pacific squat lobsters. Our phylogenetic reconstruction using molecular data supports the recent taxonomic splitting of the genus Munida into several genera. Excluding one species (M. callista), the monophyly of the genus Munida was supported by Bayesian analysis of the molecular data. Three moderately diverse genera (Onconida, Paramunida, and Raymunida) also appeared monophyletic, both according to morphological and molecular data, always with high support. However, other genera (Crosnierita and Agononida) seem to be para- or polyphyletic. Three new cryptic species were identified in the course of this study. It would appear that the evolution of this group was marked by rapid speciation and stasis, or certain constraints, in its morphological evolution.
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Affiliation(s)
- Annie Machordom
- Museo Nacional de Ciencias Naturales (CSIC), José Gutiérrez Abascal 2, 28006 Madrid, Spain.
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31
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Gusmão J, Lazoski C, Solé-Cava AM. Population genetic structure of Brazilian shrimp species (Farfantepenaeus sp., F. brasiliensis, F. paulensis and Litopenaeus schmitti: Decapoda: Penaeidae). Genet Mol Biol 2005. [DOI: 10.1590/s1415-47572005000100029] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/22/2022] Open
Affiliation(s)
- Jaqueline Gusmão
- Universidade Estadual do Rio de Janeiro, Brazil; Universidade Federal do Rio de Janeiro, Brazil
| | | | - Antonio M. Solé-Cava
- Universidade Federal do Rio de Janeiro, Brazil; University of Liverpool, United Kingdom
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32
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Francisco AKD, Galetti Junior PM. Genetic distance between broodstocks of the marine shrimp Litopenaeus vannamei (Decapoda, Penaeidae) by mtDNA analyses. Genet Mol Biol 2005. [DOI: 10.1590/s1415-47572005000200014] [Citation(s) in RCA: 14] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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33
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Voloch CM, Solé-Cava AM. Genetic structure of the sea-bob shrimp (Xiphopenaeus kroyeri Heller, 1862; Decapoda, Penaeidae) along the Brazilian southeastern coast. Genet Mol Biol 2005. [DOI: 10.1590/s1415-47572005000200013] [Citation(s) in RCA: 11] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022] Open
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34
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Lavery S, Chan TY, Tam YK, Chu KH. Phylogenetic relationships and evolutionary history of the shrimp genus Penaeus s.l. derived from mitochondrial DNA. Mol Phylogenet Evol 2004; 31:39-49. [PMID: 15019607 DOI: 10.1016/j.ympev.2003.07.015] [Citation(s) in RCA: 93] [Impact Index Per Article: 4.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2002] [Revised: 07/08/2003] [Indexed: 11/20/2022]
Abstract
Mitochondrial DNA sequences were used to reconstruct the phylogeny of the Penaeus s.l. genus of marine shrimp. This phylogeny was used to test the validity of hypotheses on the species groupings, in particular the subgenus/genus subdivision, and on the species' evolutionary history. Newly derived sequences of both 16S rRNA and COI genes from 19 species of Penaeus s.l. and one outgroup were combined with previous sequences from seven additional species to allow analysis of 26 of the 28 recognised (or nominated) species. Phylogenetic analyses do not support the validity of all the previously created six subgenera (or genera) but provide evidence for division of the genus into two previously unrecognised clades (Melicertus+Marsupenaeus and Penaeus s.s.+Fenneropenaeus+Farfantepenaeus+Litopenaeus). A key conclusion from a previous molecular study, that the subgenera Farfantepenaeus and Litopenaeus are paraphyletic, was rejected. The molecular data support an Indo-West Pacific origin of the genus, with a single relatively recent colonisation of the Western Hemisphere, and subsequent subdivision into two clades prior to the emergence of the Panamanian isthmus.
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Affiliation(s)
- Shane Lavery
- Department of Organismic and Evolutionary Biology, Harvard University, Cambridge, MA 02138, USA
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35
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McMillen-Jackson AL, Bert TM. Disparate patterns of population genetic structure and population history in two sympatric penaeid shrimp species (Farfantepenaeus aztecus and Litopenaeus setiferus) in the eastern United States. Mol Ecol 2004; 12:2895-905. [PMID: 14629371 DOI: 10.1046/j.1365-294x.2003.01955.x] [Citation(s) in RCA: 76] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Analysing the population genetic structures of sympatric species provides opportunities to compare patterns of population genetic structure and phylogeography in order to gain insight into the factors that influence the development of the observed patterns. In this study, we compared the population genetic structures and phylogeographies of brown shrimp (Farfantepenaeus aztecus) and white shrimp (Litopenaeus setiferus), two sympatric penaeid shrimp species that inhabit the waters of the eastern USA, using sequence analysis of the mitochondrial DNA control region. Brown shrimp showed no significant phylogenetic structure or population subdivision, and closely related haplotypes were geographically dispersed. Mismatch analysis indicated that brown shrimp experienced a late-Pleistocene era sudden population expansion. In contrast, white shrimp had a complex haplotype phylogeny consisting of two distinct lineages and two less well-defined sublineages, and the haplotypes and lineages were geographically structured. Mismatch analysis for white shrimp also showed evidence of sudden population expansion, albeit for each lineage separately and more recently than in the brown shrimp. These disparate patterns may have developed as a result of species-specific differences in physiological tolerances and habitat preferences that caused greater fluctuations in white shrimp population sizes and reductions in long-term effective population size relative to that of the brown shrimp, and thereby increased the susceptibility of the white shrimp populations to stochastic genetic change.
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Affiliation(s)
- A L McMillen-Jackson
- Florida Marine Research Institute, 100 8th Avenue S.E., St. Petersburg, FL 33701, USA.
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36
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Quérouil S, Verheyen E, Dillen M, Colyn M. Patterns of diversification in two African forest shrews: Sylvisorex johnstoni and Sylvisorex ollula (Soricidae, Insectivora) in relation to paleo-environmental changes. Mol Phylogenet Evol 2003; 28:24-37. [PMID: 12801469 DOI: 10.1016/s1055-7903(03)00027-7] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We analysed the phylogeographic patterns of two congeneric and syntopic species of forest shrews and compared them with biogeographical scenarios proposed for the Central African tropical forest. Our results, based on 82 partial 16s rRNA mitochondrial sequences, suggest that both species must have originated in the Plio-Pleistocene and that their haplotype distributions could reflect the effect of forest fragmentation and expansion associated with paleoclimatic fluctuations during the Pleistocene. However, it seems that the two species responded very differently to environmental changes. While Sylvisorex johnstoni populations exhibit ancient haplotype segregation that may even represent currently unrecognised allopatric species, Sylvisorex ollula haplotypes are much less differentiated and suggest that this taxon has undergone a recent range expansion. The observed differences between these taxa may be explained by their presumably different ecological requirements and colonisation abilities, which in turn may be the result of a significant difference in body size between the two species. In conclusion, our results suggest that it is necessary to incorporate several ecologically well-documented species in studies that attempt to infer evolutionary processes from phylogeographic patterns
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Affiliation(s)
- Sophie Quérouil
- Laboratoire Ethologie-Evolution-Ecologie, Station Biologique, CNRS-U.M.R. 6552, Université de Rennes 1, F-35380, Paimpont, France.
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37
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Hertzler PL. Development of the mesendoderm in the dendrobranchiate shrimp Sicyonia ingentis. ARTHROPOD STRUCTURE & DEVELOPMENT 2002; 31:33-49. [PMID: 18088969 DOI: 10.1016/s1467-8039(02)00018-x] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/02/2002] [Accepted: 04/05/2002] [Indexed: 05/25/2023]
Abstract
Dendrobranchiate shrimp embryos form a 4-cell stage that resembles spiralians in its cell contacts, but cleavage proceeds radially without any further evidence of spiralian character. The fates of Sicyonia ingentis mesendoblasts were followed by nuclear staining and confocal microscopy. The dorsal mesendoblast produced yolk-endoderm, which proliferated from the anterior of the embryo to cover the dorsal interior. The ventral mesendoblast divided into the primordial endoblast and a cell that further divided into the primordial mesoteloblast and the primordial germ cell. The primordial endoblast divided into left and right endoblasts, which then underwent two teloblastic divisions, leaving behind two pairs of smaller descendants and the larger endoblasts at the dorsal posterior. The endoblasts then paused in cell division while extensive morphogenesis occurred in the ectoderm to form the naupliar segments. Ectoteloblasts formed at the posterior. The primordial mesoteloblast underwent two asymmetric divisions, synchronously with the endoblasts, to form two small descendants and M2 at the ventral posterior. From 15 to 18h, M2 divided laterally then dorsal-ventrally to form four descendants. The results extend the cell lineage of S. ingentis from the egg to the nauplius larva, and demonstrate that endoderm forms dorsal to teloblastic mesoderm from an early stage.
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Affiliation(s)
- Philip L Hertzler
- Department of Biology, Central Michigan University, Brooks 217, 100 W. Preston Road, Mt. Pleasant, MI, USA
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