References
- Abdelrahman H, ElHady M, Alcivar-Warren A, Allen S, Al-Tobasei R, Bao L, Beck B, Blackburn H, Bosworth B, Buchanan J, et al. 2017. Aquaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research. BMC Genomics. 18(1):191. doi:https://doi.org/10.1186/s12864-017-3557-1
- Alam MMM, Pálsson S. 2016. Population structure of the giant tiger shrimp Penaeus monodon in Bangladesh based on variation in microsatellites and immune-related genes. Mar Biol Res. 12(7):706–714. doi:https://doi.org/10.1080/17451000.2016.1196820
- Andriantahina F, Liu X, Huang H. 2013. Genetic map construction and quantitative trait locus (QTL) detection of growth-related traits in Litopenaeus vannamei for selective breeding applications. PLoS One. 8(10):e75206. doi:https://doi.org/10.1371/journal.pone.0075206
- Andriantahina F, Liu X, Huang H, Xiang J. 2012. ZResponse to selection, heritability and genetic correlations between body weight and body size in Pacific white shrimp, Litopenaeus vannamei. Chin J Ocean Limnol. 30(2):200–205. doi:https://doi.org/10.1007/s00343-012-1066-2
- Argue BJ, Arce SM, Lotz JM, Moss SM. 2002. Selective breeding of Pacific white shrimp (Litopenaeus vannamei) for growth and resistance to Taura Syndrome Virus. Aquaculture 204(3-4):447–460. doi:https://doi.org/10.1016/S0044-8486(01)00830-4
- Baranski M, Gopikrishna G, Robinson NA, Katneni VK, Shekhar MS, Shanmugakarthik J, Jothivel S, Gopal C, Ravichandran P, Kent M, et al. 2014. The development of a high density linkage map for black tiger shrimp (Penaeus monodon) based on cSNPs. PLoS One. 9(1):e85413 doi:https://doi.org/10.1371/journal.pone.0085413
- Bouchon D, Souty-Grosset C, Raimond R. 1994. Mitochondrial DNA variation and markers of species identity in two penaeid shrimp species: Penaeus monodon Fabricius and P. japonicus Bate. Aquaculture 127(2-3):131–144. doi:https://doi.org/10.1016/0044-8486(94)90420-0
- Chen K, Li E, Li T, Xu C, Wang X, Lin H, Qin JG, Chen L. 2015. Transcriptome and molecular pathway analysis of the hepatopancreas in the Pacific white shrimp Litopenaeus vannamei under chronic low-salinity stress. PLoS One. 10(7):e0131503. doi:https://doi.org/10.1371/journal.pone.0131503
- Chen X, Zeng D, Chen X, Xie D, Zhao Y, Yang C, Li Y, Ma N, Li M, Yang Q, et al. 2013. Transcriptome analysis of Litopenaeus vannamei in response to white spot syndrome virus infection. PLoS One. 8(8):e73218. doi:https://doi.org/10.1371/journal.pone.0073218
- Chow S, Dougherty WJ, Sandifer PA. 1990. Meiotic chromosome complements and nuclear DNA contents of four species of shrimps of the genus Penaeus. J Crustac Biol. 10(1):29–36. doi:https://doi.org/10.2307/1548667
- Cruz P, Ibarra AM, Mejia-Ruiz H, Gaffney PM, PéRez-EnriQuez R. 2004. Genetic variability assessed by microsatellites in a breeding program of Pacific white shrimp (Litopenaeus vannamei). Mar Biotechnol. 6(2):157–164. doi:https://doi.org/10.1007/s10126-003-0017-5
- de Freitas PD, Pinheiro AP, Silva TB, Galetti Junior PM. 2007. In silico analysis of polymorphic microsatellites in penaeid shrimp and construction of a free-access database. Genet Mol Biol. 30(4):1194–1197. doi:https://doi.org/10.1590/S1415-47572007000600027
- Dhar AK, Dettori A, Roux MM, Klimpel KR, Read B. 2003. Identification of differentially expressed genes in shrimp (Penaeus stylirostris) infected with White spot syndrome virus by cDNA microarrays. Arch Virol. 148(12):2381–2396. doi:https://doi.org/10.1007/s00705-003-0172-z
- Dong S, Kong J, Zhang T, Meng X, Wang R. 2006. Parentage determination of Chinese shrimp (Fenneropenaeus chinensis) based on microsatellite DNA markers. Aquaculture 258(1-4):283–288. doi:https://doi.org/10.1016/j.aquaculture.2006.04.044
- Du ZQ, Ciobanu DC, Onteru SK, Gorbach D, Mileham AJ, Jaramillo G, Rothschild MF. 2010. A gene-based SNP linkage map for pacific white shrimp, Litopenaeus vannamei. Anim Genet. 41(3):286–294. doi:https://doi.org/10.1111/j.1365-2052.2009.02002.x
- FAO 2018. FishStat Plus – Universal Software for Fishery Statistical Time Series. Rome: FAO Fisheries and Aquaculture Department.
- Ghaffari N, Sanchez-Flores A, Doan R, Garcia-Orozco KD, Chen PL, Ochoa-Leyva A, Lopez-Zavala AA, Carrasco JS, Hong C, Brieba LG, et al. 2014. Novel transcriptome assembly and improved annotation of the whiteleg shrimp (Litopenaeus vannamei), a dominant crustacean in global seafood mariculture. Sci Rep.Rep4:7081 doi:https://doi.org/10.1038/srep07081
- Gitterle T, Johansen H, Erazo C, Lozano C, Cock J, Salazar M, Rye M. 2007. Response to multi-trait selection for harvest weight, overall survival, and resistance to white spot syndrome virus (WSSV) in Penaeus (Litopenaeus) vannamei. Aquaculture 272:S262. doi:https://doi.org/10.1016/j.aquaculture.2007.07.073
- Gjedrem T, Robinson N. 2014. Advances by selective breeding for aquatic species: a review. Agric. Sci. 5(12):1152–1158. doi:https://doi.org/10.4236/as.2014.512125.
- Gorbach DM, Hu ZL, Du ZQ, Rothschild MF. 2010. Mining ESTs to determine the usefulness of SNPs across shrimp species. Anim Biotechnol. 21(2):100–103. doi:https://doi.org/10.1080/10495390903323968
- Guo L, Xu YH, Zhang N, Zhou FL, Huang JH, Liu BS, Jiang SG, Zhang D. 2019. A high-density genetic linkage map and QTL mapping for sex in black tiger shrimp (Penaeus monodon). Front Genet. 10:326 doi:https://doi.org/10.3389/fgene.2019.00326
- Guo H, Ye CX, Wang AL, Xian JA, Liao SA, Miao YT, Zhang SP. 2013. Trascriptome analysis of the Pacific white shrimp Litopenaeus vannamei exposed to nitrite by RNA-seq. Fish Shellfish Immunol. 35(6):2008–2016. doi:https://doi.org/10.1016/j.fsi.2013.09.019
- Guppy JL, Jones DB, Jerry DR, Wade NM, Raadsma HW, Huerlimann R, Zenger KR. 2018. The state of “omics” research for farmed penaeids: advances in research and impediments to industry utilization. Front Genet. 9:282 doi:https://doi.org/10.3389/fgene.2018.00282
- Hayes BJ, Gitterle T, Gopikrishna G, Gopal C, Krishna G, Jahageerdar S, Lozano C, Alavandi S, Paulpandi S, Ravichandran P, et al. 2010. Limited evidence for genetic variation for resistance to the white spot syndrome virus in Indian populations of Penaeus monodon. Aquac Res. 41(11):e872–e877. doi:https://doi.org/10.1111/j.1365-2109.2010.02611.x
- Huang W, Cheng C, Liu J, Zhang X, Ren C, Jiang X, Chen T, Cheng K, Li H, Hu C. 2020. Fine mapping of the high-pH tolerance and growth trait-related quantitative trait loci (QTLs) and identification of the candidate genes in Pacific white shrimp (Litopenaeus vannamei). Mar Biotechnol (NY). 22(1):1–18. doi:https://doi.org/10.1007/s10126-019-09932-8
- Huang S-W, Lin Y-Y, You E-M, Liu T-T, Shu H-Y, Wu K-M, Tsai S-F, Lo C-F, Kou G-H, Ma G-C, et al. 2011. Fosmid library end sequencing reveals a rarely known genome structure of marine shrimp Penaeus monodon. BMC Genomics. 12(1):242 doi:https://doi.org/10.1186/1471-2164-12-242
- Huerlimann R, Wade NM, Gordon L, Montenegro JD, Goodall J, McWilliam S, Tinning M, Siemering K, Giardina E, Donovan D, et al. 2018. De novo assembly, characterization, functional annotation and expression patterns of the black tiger shrimp (Penaeus monodon) transcriptome. Sci Rep. 8(1):1–14.
- Johnson JG, Paul MR, Kniffin CD, Anderson PE, Burnett LE, Burnett KG. 2015. High CO2 alters the hypoxia response of the Pacific whiteleg shrimp (Litopenaeus vannamei) transcriptome including known and novel hemocyanin isoforms. Physiol Genomics. 47(11):548–558. doi:https://doi.org/10.1152/physiolgenomics.00031.2015
- Jones DB, Jerry DR, Khatkar MS, Raadsma HW, van der Steen H, Prochaska J, Forêt S, Zenger KR. 2017. A comparative integrated gene-based linkage and locus ordering by linkage disequilibrium map for the Pacific white shrimp. Litopenaeus vannamei Sci Rep. 7(1):1–16.
- Karoonuthaisiri N, Sittikankeaw K, Preechaphol R, Kalachikov S, Wongsurawat T, Uawisetwathana U, Russo JJ, Ju J, Klinbunga S, Kirtikara K. 2009. ReproArray(GTS): a cDNA microarray for identification of reproduction-related genes in the giant tiger shrimp Penaeus monodon and characterization of a novel nuclear autoantigenic sperm protein (NASP) gene . Comp Biochem Physiol D: Genomics Proteomics. 4(2):90–99. doi:https://doi.org/10.1016/j.cbd.2008.11.003
- Katneni VK, Shekhar MS, Jangam AK, Prabhudas SK, Krishnan K, Kaikkolante N, Paran BC, Baghel DS, Koyadan VK, Jena J, et al. 2020. Novel isoform sequencing based full-length transcriptome resource for Indian white shrimp. Front Mar Sci. 7:605098. doi:https://doi.org/10.3389/fmars.2020.605098
- Kawato S, Shitara A, Wang Y, Nozaki R, Kondo H, Hirono I. 2019. Crustacean genome exploration reveals the evolutionary origin of white spot syndrome virus. J Virol. 93(3):e01144–18.
- Korshkari P, Vaiwsri S, Flegel TW, Ngamsuriyaroj S, Sonthayanon B, Prachumwat A. 2014. ShrimpGPAT: a gene and protein annotation tool for knowledge sharing and gene discovery in shrimp. BMC Genomics. 15(1):506 doi:https://doi.org/10.1186/1471-2164-15-506
- Koyama T, Asakawa S, Katagiri T, Shimizu A, Fagutao FF, Mavichak R, Santos MD, Fuji K, Sakamoto T, Kitakado T, et al. 2010. Hyper-expansion of large DNA segments in the genome of kuruma shrimp, Marsupenaeus japonicus. BMC Genomics. 11(1):141 doi:https://doi.org/10.1186/1471-2164-11-141
- Leelatanawit R, Uawisetwathana U, Klinbunga S, Karoonuthaisiri N. 2011. A cDNA microarray, UniShrimpChip, for identification of genes relevant to testicular development in the black tiger shrimp (Penaeus monodon). BMC Mol Biol. 12(1):15 doi:https://doi.org/10.1186/1471-2199-12-15
- Lehnert SA, Wilson KJ, Byrne K, Moore SS. 1999. Tissue-specific expressed sequence tags from the black tiger shrimp Penaeus monodon. Mar Biotechnol (NY).1(5):465–476. doi:https://doi.org/10.1007/pl00011803
- Leu JH, Chen SH, Wang YB, Chen YC, Su SY, Lin CY, Ho JM, Lo CF. 2011. A review of the major penaeid shrimp EST studies and the construction of a shrimp transcriptome database based on the ESTs from four penaeid shrimp. Mar Biotechnol (NY). 13(4):608–621. doi:https://doi.org/10.1007/s10126-010-9286-y
- Li Y, Dierens L, Byrne K, Miggiano E, Lehnert S, Preston N, Lyons R. 2006. QTL detection of production traits for the Kuruma prawn Penaeus japonicus (Bate) using AFLP markers. Aquaculture 258(1–4):198–210. doi:https://doi.org/10.1016/j.aquaculture.2006.04.027
- Li C, Weng S, Chen Y, Yu X, Lü L, Zhang H, He J, Xu X. 2012. Analysis of Litopenaeus vannamei transcriptome using the next-generation DNA sequencing technique. PLoS One. 7(10):e47442. doi:https://doi.org/10.1371/journal.pone.0047442
- Li Y, Wongprasert K, Shekhar M, Ryan J, Dierens L, Meadows J, Preston N, Coman G, Lyons RE. 2007. Development of two microsatellite multiplex systems for black tiger shrimp Penaeus monodon and its application in genetic diversity study for two populations. Aquaculture 266(1–4):279–288. doi:https://doi.org/10.1016/j.aquaculture.2007.01.038
- Liu C, Wang X, Xiang J, Li F. 2012. EST-derived SNP discovery and selective pressure analysis in Pacific white shrimp (Litopenaeus vannamei). Chin J Ocean Limnol. 30(5):713–723. doi:https://doi.org/10.1007/s00343-012-1252-2
- Liu J, Yu Y, Li F, Zhang X, Xiang J. 2014. A new anti-lipopolysaccharide factor (ALF) gene with its SNP polymorphisms related to WSSV-resistance of Litopenaeus vannamei. Fish Shellfish Immunol. 39(1):24–33. doi:https://doi.org/10.1016/j.fsi.2014.04.009
- Lu X, Kong J, Luan S, Dai P, Meng X, Cao B, Luo K. 2016b. Transcriptome analysis of the hepatopancreas in the Pacific white shrimp (Litopenaeus vannamei) under acute ammonia stress. PLoS One. 11(10):e0164396. doi:https://doi.org/10.1371/journal.pone.0164396
- Lu X, Kong J, Meng X, Cao B, Luo K, Dai P, Luan S. 2018. Identification of SNP markers associated with tolerance to ammonia toxicity by selective genotyping from de novo assembled transcriptome in Litopenaeus vannamei. Fish Shellfish Immunol. 73:158–166. doi:https://doi.org/10.1016/j.fsi.2017.12.005
- Lu X, Luan S, Hu LY, Mao Y, Tao Y, Zhong SP, Kong J. 2016a. High-resolution genetic linkage mapping, high-temperature tolerance and growth-related quantitative trait locus (QTL) identification in Marsupenaeus japonicus. Mol Genet Genomics. 291(3):1391–1405. doi:https://doi.org/10.1007/s00438-016-1192-1
- Maneeruttanarungroj C, Pongsomboon S, Wuthisuthimethavee S, Klinbunga S, Wilson KJ, Swan J, Li Y, Whan V, Chu K-H, Li CP, et al. 2006. Development of polymorphic expressed sequence tag-derived microsatellites for the extension of the genetic linkage map of the black tiger shrimp (Penaeus monodon). Anim Genet. 37(4):363–368. doi:https://doi.org/10.1111/j.1365-2052.2006.01493.x
- Nagpure NS, Rashid I, Pati R, Pathak AK, Singh M, Singh SP, Sarkar UK. 2013. FishMicrosat: a microsatellite database of commercially important fishes and shellfishes of the Indian subcontinent. BMC Genomics. 14(1):630 doi:https://doi.org/10.1186/1471-2164-14-630
- O’Leary NA, Trent HF, III Robalino J, Peck MET, McKillen DJ, Gross PS. 2006. Analysis of multiple tissue-specific cDNA libraries from the Pacific whiteleg shrimp, Litopenaeus vannamei. Integr. Comp. Biol46(6):931–939.
- Pan YW, Chou HH, You EM, Yu HT. 2004. Isolation and characterization of 23 polymorphic microsatellite markers for diversity and stock analysis in tiger shrimp (Penaeus monodon). Mol Ecol Notes.Notes4(3):345–347. doi:https://doi.org/10.1111/j.1471-8286.2004.00692.x
- Pan D, He N, Yang Z, Liu H, Xu X. 2005. Differential gene expression profile in hepatopancreas of WSSV-resistant shrimp (Penaeus japonicus) by suppression subtractive hybridization. Dev Comp Immunol. 29(2):103–112. doi:https://doi.org/10.1016/j.dci.2004.07.001
- Peng J, Wei P, Chen X, Zeng D, Chen X. 2016. Identification of cold responsive genes in Pacific white shrimp (Litopenaeus vannamei) by suppression subtractive hybridization. Gene 575(2 Pt 3):667–674. doi:https://doi.org/10.1016/j.gene.2015.09.045
- Perez F, Ortiz J, Zhinaula M, Gonzabay C, Calderon J, Volckaert FAMJ. 2005. Development of EST-SSR markers by data mining in three species of shrimp: Litopenaeus vannamei, Litopenaeus stylirostris, and Trachypenaeus birdy. Mar Biotechnol (NY). 7(5):554–569. doi:https://doi.org/10.1007/s10126-004-5099-1
- Perez-Enriquez R, Max-Aguilar A. 2016. Pedigree traceability in whiteleg shrimp (Litopenaeus vannamei) using genetic markers: A comparison between microsatellites and SNPs. Ciencmar. 42(4):227–235. doi:https://doi.org/10.7773/cm.v42i4.2662
- Perez-Enriquez R, Medina-Espinoza JA, Max-Aguilar A, Saucedo-Barrón CJ. 2018b. Genetic tracing of farmed shrimp (Decapoda: Penaeidae) in wild populations from a main aquaculture region in Mexico. Rbt. 66(1):381–393. doi:https://doi.org/10.15517/rbt.v66i1.27112
- Perez-Enriquez R, Robledo D, Houston RD, Llera-Herrera R. 2018a. SNP markers for the genetic characterization of Mexican shrimp broodstocks. Genomics 110(6):423–429. doi:https://doi.org/10.1016/j.ygeno.2018.10.001
- Peruzza L, Shekhar MS, Kumar KV, Swathi A, Karthic K, Hauton C, Vijayan KK. 2019. Temporal changes in transcriptome profile provide insights of white spot syndrome virus infection in Litopenaeus vannamei. Sci Rep. 9(1):1–13.
- Peruzza L, Thamizhvanan S, Vimal S, Kumar KV, Shekhar MS, Smith VJ, Hauton C, Vijayan KK, Hameed ASS. 2020. A comparative synthesis of transcriptomic analyses reveals major differences between WSSV-susceptible Litopenaeus vannamei and WSSV-refractory Macrobrachium rosenbergii. Dev Comp Immunol. 104:103564 doi:https://doi.org/10.1016/j.dci.2019.103564
- Pootakham W, Uengwetwanit T, Sonthirod C, Sittikankaew K, Karoonuthaisiri N. 2020. A novel full-length transcriptome resource for black tiger shrimp (Penaeus monodon) developed using Isoform Sequencing (Iso-Seq). Front Mar Sci. 7:172. doi:https://doi.org/10.3389/fmars.2020.00172
- Powell D, Knibb W, Remilton C, Elizur A. 2015. De-novo transcriptome analysis of the banana shrimp (Fenneropenaeus merguiensis) and identification of genes associated with reproduction and development. Mar Genomics. 22:71–78. doi:https://doi.org/10.1016/j.margen.2015.04.006
- Preechaphol R, Klinbunga S, Khamnamtongand B, Menasveta P. 2010. Isolation and characterization of genes functionally involved in ovarian development of the giant tiger shrimp Penaeus monodon by suppression subtractive hybridization (SSH). Genet Mol Biol. 33(4):676–685. doi:https://doi.org/10.1590/S1415-47572010000400014
- Rezaee S, Farahmand H, Nematollahi MA. 2016. Genetic diversity status of Pacific white shrimp (Litopenaeus vannamei) using SSR markers in Iran. Aquacult Int. 24(2):479–489. doi:https://doi.org/10.1007/s10499-015-9939-y
- Robalino J, Almeida JS, McKillen D, Colglazier J, Trent HF, III Chen YA, Peck MET, Browdy CL, Chapman RW, Warr GW, et al. 2007. Insights into the immune transcriptome of the shrimp Litopenaeus vannamei: tissue-specific expression profiles and transcriptomic responses to immune challenge. Physiol Genomics. 29(1):44–56. doi:https://doi.org/10.1152/physiolgenomics.00165.2006
- Robinson NA, Gopikrishna G, Baranski M, Katneni VK, Shekhar MS, Shanmugakarthik J, Jothivel S, Gopal C, Ravichandran P, Gitterle T, Ponniah AG. 2014. QTL for white spot syndrome virus resistance and the sex-determining locus in the Indian black tiger shrimp (Penaeus monodon). BMC Genomics. 15(1):731. doi:https://doi.org/10.1186/1471-2164-15-731
- Santos CA, Andrade SCS, Freitas PD. 2018. Identification of SNPs potentially related to immune responses and growth performance in Litopenaeus vannamei by RNA-seq analyses. Peer J. 6:e5154 doi:https://doi.org/10.7717/peerj.5154
- Shekhar MS, Gomathi A, Gopikrishna G, Ponniah AG. 2015. Gene expression profiling in gill tissues of white spot syndrome virus infected black tiger shrimp Penaeus monodon by DNA microarray. Virusdisease 26(1-2):9–18. doi:https://doi.org/10.1007/s13337-014-0243-7
- Shekhar MS, Kiruthika J, Ponniah AG. 2013. Identification and expression analysis of differentially expressed genes from shrimp (Penaeus monodon) in response to low salinity stress. Fish Shellfish Immunol. 35(6):1957–1968. doi:https://doi.org/10.1016/j.fsi.2013.09.038
- Shekhar MS, Kiruthika J, Rajesh S, Ponniah AG. 2014. High salinity induced expression profiling of differentially expressed genes in shrimp (Penaeus monodon). Mol Biol Rep. 41(9):6275–6289. doi:https://doi.org/10.1007/s11033-014-3510-1
- Shekhar MS, Ponniah AG. 2015. Recent insights into host-pathogen interaction in white spot syndrome virus infected penaeid shrimp. J Fish Dis. 38(7):599–612. doi:https://doi.org/10.1111/jfd.12279
- Shi X, Meng X, Kong J, Luan S, Luo K, Cao B, Lu X, Li X, Chen B, Cao J. 2018. Transcriptome analysis of 'Huanghai No. 2' Fenneropenaeus chinensis response to WSSV using RNA-seq. Fish Shellfish Immunol. 75:132–138. doi:https://doi.org/10.1016/j.fsi.2018.01.045
- Sittikankaew K, Pootakham W, Sonthirod C, Sangsrakru D, Yoocha T, Khudet J, Nookeaw I, Uawisetwathana U, Rungrassamee W, Karoonuthaisiri N. 2020. Transcriptome analyses reveal the synergistic effects of feeding and eyestalk ablation on ovarian maturation in black tiger shrimp. Sci Rep. 10(1):1–13.
- Sookruksawong S, Sun F, Liu Z, Tassanakajon A. 2013. RNA-Seq analysis reveals genes associated with resistance to Taura syndrome virus (TSV) in the Pacific white shrimp Litopenaeus vannamei. Dev Comp Immunol. 41(4):523–533. doi:https://doi.org/10.1016/j.dci.2013.07.020
- Staelens J, Rombaut D, Vercauteren I, Argue B, Benzie J, Vuylsteke M. 2008. High-density linkage maps and sex-linked markers for the black tiger shrimp (Penaeus monodon). Genetics 179(2):917–925. doi:https://doi.org/10.1534/genetics.107.080150
- Swathi A, Shekhar MS, Katneni VK, Vijayan KK. 2018. Genome size estimation of brackishwater fishes and penaeid shrimps by flow cytometry. Mol Biol Rep. 45(5):951–960. doi:https://doi.org/10.1007/s11033-018-4243-3
- Tassanakajon A, Klinbunga S, Paunglarp N, Rimphanitchayakit V, Udomkit A, Jitrapakdee S, Sritunyalucksana K, Phongdara A, Pongsomboon S, Supungul P, et al. 2006. Penaeus monodon gene discovery project: the generation of an EST collection and establishment of a database. Gene 384:104–112. doi:https://doi.org/10.1016/j.gene.2006.07.012
- Tian Y, Kong J, Wang W. 2008. Construction of AFLP-based genetic linkage maps for the Chinese shrimp Fenneropaeneus chinensis. Chinese Sci Bull. 53(8):1205–1216.
- Tong J, Lehnert SA, Byrne K, Kwan HS, Chu KH. 2002. Development of polymorphic EST markers in Penaeus monodon: applications in penaeid genetics. Aquaculture 208(1-2):69–79. doi:https://doi.org/10.1016/S0044-8486(01)00706-2
- Trang TT, N, Ninh Huu Nguyen HH, Wayne K, Nguyen N. Hong 2019. Genetic variation in disease resistance against white spot syndrome virus (WSSV) in Liptopenaeus vannamei. Front Genet. 10:264. doi:https://doi.org/10.3389/fgene.2019.00264
- Uengwetwanit T, Ponza P, Sangsrakru D, Wichadakul D, Ingsriswang S, Leelatanawit R, Klinbunga S, Tangphatsornruang S, Karoonuthaisiri N. 2018. Transcriptome-based discovery of pathways and genes related to reproduction of the black tiger shrimp (Penaeus monodon). Mar Genomics. 37:69–73. doi:https://doi.org/10.1016/j.margen.2017.08.007
- Van Quyen D, Gan HM, Lee YP, Nguyen DD, Nguyen TH, Tran XT, Khang DD, Austin CM, Austin CM. 2020. Improved genomic resources for the black tiger prawn (Penaeus monodon). Mar Genomics. 52:100751. doi:https://doi.org/10.1016/j.margen.2020.100751
- Wang H, Li F, Xiang J. 2005. Polymorphic EST-SSR markers and their mode of inheritance in Fenneropenaeus chinensis. Aquaculture 249(1–4):107–114. doi:https://doi.org/10.1016/j.aquaculture.2005.03.041
- Wang W, Tian Y, Kong J, Li X, Liu X, Yang C. 2012. Integration genetic linkage map construction and several potential QTLs mapping of Chinese shrimp (Fenneropenaeus chinensis) based on three types of molecular markers. Russ J Genet. 48(4):422–434. doi:https://doi.org/10.1134/S102279541204014X
- Wang Y, Yu Y, Li S, Zhang X, Xiang J, Li F. 2020. Sex-specific transcriptome sequencing of Zoea I Larvae and identification of sex-linked genes using bulked segregant analysis in Pacific White Shrimp Litopenaeus vannamei. Mar Biotechnol. 22:423–432. doi:https://doi.org/10.1007/s10126-020-09962-7
- Wang Q, Yu Y, Zhang Q, Zhang X, Yuan J, Huang H, Xiang J, Li F. 2019. A novel candidate gene associated with body weight in the Pacific White Shrimp Litopenaeus vannamei. Front. Genet 10(10):520. doi:https://doi.org/10.3389/fgene.2019.00520
- Wei J, Zhang X, Yu Y, Huang H, Li F, Xiang J. 2014. Comparative transcriptomic characterization of the early development in Pacific white shrimp Litopenaeus vannamei. PLoS One. 9(9):e106201. doi:https://doi.org/10.1371/journal.pone.0106201
- Wiggans GR, Cole JB, Hubbard SM, Sonstegard TS. 2017. Genomic selection in dairy cattle: the USDA experience. Annu Rev Anim Biosci. 5:309–327. doi:https://doi.org/10.1146/annurev-animal-021815-111422
- Wilson K, Cahill V, Ballment E, Benzie J. 2000. The complete sequence of the mitochondrial genome of the crustacean Penaeus monodon: are malacostracan crustaceans more closely related to insects than to branchiopods? Mol Biol Evol. 17(6):863–874. doi:https://doi.org/10.1093/oxfordjournals.molbev.a026366
- Wu W, Lin X, Wang C, Ke J, Wang L, Liu H. 2019. Transcriptome of white shrimp Litopenaeus vannamei induced with rapamycin reveals the role of autophagy in shrimp immunity. Fish Shellfish Immunol. 86:1009–1018. doi:https://doi.org/10.1016/j.fsi.2018.12.039
- Wuthisuthimethavee S, Lumubol P, Vanavichit A, Tragoonrung S. 2003. Development of microsatellite markers in black tiger shrimp (Penaeus monodon Fabricius). Aquaculture 224(1-4):39–50. doi:https://doi.org/10.1016/S0044-8486(03)00222-9
- Wuthisuthimethavee S, Takashi A, Hirono I, Tassanakajon A. 2009. Preliminary study of BAC library construction in black tiger shrimp, Penaeus monodon. Walailak J Sci Technol. 6(1):37–48.
- Wyban JA, Swingle J, Sweeney J, Pruder G. 1992. Development and commercial performance of high health shrimp using specific pathogen free (SPF) broodstock Penaeus vannamei In: Wyban JA, editor. Proceedings of the special session on shrimp farming. Baton Rouge, LA: World Aquaculture Society. pp. 254–260.
- You EM, Liu KF, Huang SW, Chen M, Groumellec ML, Fann SJ, Yu H-T. 2010. Construction of integrated genetic linkage maps of the tiger shrimp (Penaeus monodon) using microsatellite and AFLP markers. Anim. Genet. 41(4):365–376.
- Yu Y, Wang Q, Zhang Q, Luo Z, Wang Y, Zhang X, Huang H, Xiang J, Li F. 2019. Genome scan for genomic regions and genes associated with growth trait in pacific white shrimp Litopeneaus vannamei. Mar Biotechnol (NY). 21(3):374–383. doi:https://doi.org/10.1007/s10126-019-09887-w
- Yu Y, Wei J, Zhang X, Liu J, Liu C, Li F, Xiang J. 2014. SNP discovery in the transcriptome of white Pacific shrimp Litopenaeus vannamei by next generation sequencing. PLoS One. 9(1):e87218. doi:https://doi.org/10.1371/journal.pone.0087218
- Yu Y, Zhang X, Yuan J, Li F, Chen X, Zhao Y, Huang L, Zheng H, Xiang J. 2015. Genome survey and high-density genetic map construction provide genomic and genetic resources for the Pacific White Shrimp Litopenaeus vannamei. Sci Rep. 5(1):1–14.
- Yuan J, Zhang X, Liu C, Yu Y, Wei J, Li F, Xiang J. 2018. Genomic resources and comparative analyses of two economical penaeid shrimp species, Marsupenaeus japonicus and Penaeus monodon. Mar Genomics. 39:22–25. doi:https://doi.org/10.1016/j.margen.2017.12.006
- Yue GH. 2014. Recent advances of genome mapping and marker-assisted selection in aquaculture. Fish. 15(3):376–396. doi:https://doi.org/10.1111/faf.12020
- Zeng D, Chen X, Li Y, Peng M, Ma N, Jiang W, Yang C, Li M. 2008. Analysis of Hsp70 in Litopenaeus vannamei and detection of SNPs. J Crustac Biol. 28(4):727–730. doi:https://doi.org/10.1651/08-3019.1
- Zeng D, Chen X, Xie D, Zhao Y, Yang C, Li Y, Ma N, Peng M, Yang Q, Liao Z, et al. 2013. Transcriptome analysis of Pacific white shrimp (Litopenaeus vannamei) hepatopancreas in response to Taura syndrome Virus (TSV) experimental infection. PLoS One. 8(2):e57515. doi:https://doi.org/10.1371/journal.pone.0057515
- Zenger KR, Khatkar MS, Jones DB, Khalilisamani N, Jerry DR, Raadsma HW. 2019. Genomic selection in aquaculture: application, limitations and opportunities with special reference to marine shrimp and pearl oysters. Front Genet. 9:693 doi:https://doi.org/10.3389/fgene.2018.00693
- Zhang L, Yang C, Zhang Y, Li L, Zhang X, Zhang Q, Xiang J. 2007. A genetic linkage map of Pacific white shrimp (Litopenaeus vannamei): sex-linked microsatellite markers and high recombination rates. Genetica 131(1):37–49. doi:https://doi.org/10.1007/s10709-006-9111-8
- Zhang Q, Yu Y, Wang Q, Liu F, Luo Z, Zhang C, Zhang X, Huang H, Xiang J, Li F. 2019c. Identification of single nucleotide polymorphisms related to the resistance against acute hepatopancreatic necrosis disease in the Pacific White Shrimp Litopenaeus vannamei by Target Sequencing Approach. Front. Genet. 10:700. doi:https://doi.org/10.3389/fgene.2019.00700
- Zhang X, Yuan J, Sun Y, Li S, Gao Y, Yu Y, Liu C, Wang Q, Lv X, Zhang X, et al. 2019a. Penaeid shrimp genome provides insights into benthic adaptation and frequent molting. Nat Commun. 10(1):1–14.
- Zhang X, Yuan J, Zhang X, Liu C, Li F, Xiang J. 2019b. Genome-wide identification and expression profiles of myosin genes in the Pacific White Shrimp, Litopenaeus vannamei. Front Physiol. 10(610). doi:https://doi.org/10.3389/fphys.2019.00610
- Zhang X, Zhang Y, Scheuring C, Zhang HB, Huan P, Wang B, Liu C, Li F, Liu B, Xiang J. 2010. Construction and characterization of a bacterial artificial chromosome (BAC) library of Pacific white shrimp, Litopenaeus vannamei. Mar Biotechnol (NY). 12(2):141–149. doi:https://doi.org/10.1007/s10126-009-9209-y
- Zhao W, Wang L, Liu M, Jiang K, Wang M, Yang G, Qi C, Wang B. 2017. Transcriptome, antioxidant enzyme activity and histopathology analysis of hepatopancreas from the white shrimp Litopenaeus vannamei fed with aflatoxin B1(AFB1)). Dev Comp Immunol. 74:69–81. doi:https://doi.org/10.1016/j.dci.2017.03.031
- Zhao C, Zhang X, Liu C, Huan P, Li F, Xiang J, Huang C. 2012. BAC end sequencing of Pacific white shrimp Litopenaeus vannamei: a glimpse into the genome of Penaeid shrimp. Chin J Ocean Limnol. 30(3):456–470. doi:https://doi.org/10.1007/s00343-012-1159-y
- Zhu K, Yu W, Huang J, Zhou F, Guo H, Zhang N, Jiang S, Zhang D. 2017. Parentage determination in black tiger shrimp (Penaeus monodon) based on microsatellite DNA markers. Aquacult Int. 25(2):827–836. doi:https://doi.org/10.1007/s10499-016-0082-1