Statistics

In order to promote research on disease resistance in shrimp, we have gathered and constructed databases of shrimp genomics data. Currently, four databases of the black tiger shrimps and two databases of the whiteleg shrimp were constructed and are available via the following web interfaces.

Table 1. Number and Information of Black Tiger Shrimp's Genomics data collected from EST, SSH, RNA sequencing databases
Penaeus monodon database
IRN code Library Name Tissue No. of Seq Source
Pmo_EST_01 Thailand P. monodon EST database (13 tissues, 37 libraries)
.1-966 Antennal gland-normalized Antennal gland of broodstock wild shrimp 966 P. monodon EST database
http://pmonodon.biotec.or.th
.967-1465 Brain and Thoracic ganglia Brain and thoracic ganglia of wild mature female shrimp (And-Sila, Chonburi) 499
.1466-1603 Eyestalk library 1 Eyestalk neural tissues of wild females with late 3rd-4th stage of ovarian development 138
.1604-2092 Eyestalk library 2 489
.2093-3057 Eyestalk library 3 Eyestalk neural tissues of wild females with 0-1st stage of ovarian development 965
.3058-4068 Gill Gill of juvenile cultured shrimp 1,011
.4069-4961 Gill-heat stress Gill of juvenile cultured shrimp treated with 34.5-36℃ seawater for 4h 893
.4962-5182 Gill-salt stress 1 Gill of juvenile cultured shrimp maintained under 3 ppt salinity for 96 h, 1, 2 and 4 weeks 221
.5182-5595 Gill-salt stress 2-mtDNA subtracted 413
.5596-5758 Gill-subtractive 1 Gill of juvenile shrimp cultured in normal and heat stress condition (treated with 34.5-36℃ seawater for 4h) 163
.5759-5924 Gill-subtractive 2 166
.5925-7565 Gill-Epipodite Gill and Epipodite of juvenile cultured shrimp 1,641
.7566-10282 Gill-Epipodite-normalize 2,717
.10283-10562 Heart Heart of juvenile cultured shrimp 280
.10563-11466 Hematopoietic tissue Hematopoietic tissues of adult SPF shrimp obtained from Broomstick Domesticated Program 904
.11467-12060 Hemocyte Hemocytes of juvenile cultured shrimp 594
.12061-23068 Hemocytes-normalized 11,008
.23069-24122 Hemocytes-Heat stressed Hemocytes of juvenile cultured shrimp 1,054
.24123-24565 Hemocytes-Vibrio harveyi challenged Hemocytes of juvenile cultured shrimp injected with Vibrio harveyi 443
.24566-25049 Hemocyte-WSSV challenged Hemocytes of juvenile SPF shrimp obtained from Broodstock Domesticated Program injected with WSSV 484
.25050-25647 Hepatopancreas Hepatopancrease of juvenile cultured shrimp 598
.25648-26346 Hepatonacreas-normalized 1 699
.26347-26916 Hepatonacreas-normalized 2 570
.26917-28888 Hepatonacreas-normalized 3 1,972
.28889-30468 Hepatonacreas-normalized 4 1,580
.30469-31597 Intestine Intestine of juvenile cultured shrimp 1,129
.31598-32005 Lymphoid organ Lymphoid organs of juvenile cultured shrimp 408
.32006-32630 Lymphoid organ Vibrio challenged Lymphoid organs of juvenile cultured shrimp injected with Vibrio harveyi 625
.32631-33350 Lymphoid organ-YHV challenged Lymphoid organs of juvenile cultured shrimp injected with YHV 720
.33351-34299 Lymphoid organ-normalized Lymphoid organs of juvenile cultured shrimp 949
.34300-36615 Ovary Vitellogenic ovaries of wild shrimp with 2nd stage of ovarian development 2,316
.36616-38371 Ovary-normalized 1,756
.38372-38569 Ovary-substractive 1 Ovaries of female broomstick shrimp having GSI=5.689% and 1.434% 198
.38570-38761 Ovary-substractive 2 192
.38762-39650 Testes Testis of broomstock cultured shrimp 889
.39651-39818 Testes-subtractive 1 Testes of male broodstock and juveniles shrimp 168
.39819-40001 Testes-subtractive 2 Testes of male broodstock and juveniles shrimp 183
Pmo_EST_02 Taiwan EST (various tissues, 2 libraries)
.1-7258 PmTWN normal post larvae shrimp 6,677 Jiann-Horng Leu et al, BMC Genomics 2007, 8:120
.7259-13935 PmTWI WSSV-infected post larvae shrimp 7,258
Pmo_SSH SSH (hemocyte, 2 libraries)
Pmo_SSH_01 Hemocyte-PmRelish dsRNA-YHV forward PmRelish dsRNA-YHV group were used as driver to subtract from those of tester,GFP dsRNA-YHV group 260 Visetnan S. et al, Fish & Shellfish Immunology 47 (2015) 572-581
Pmo_SSH_02 Hemocytes-GFP dsRNA-YHV reverse 192
Pmo_RSQ RNA Sequencing (various tissues, 2 libraries)
Pmo_RSQ_01 JICA RNAseq Various tissues 109.679 RNAseq from JICA project
Pmo_RSQ_02 Omics center RNAseq Hemocyte 80,844 Suthinee Soponpong
Pmo_ASM P. Monodon Assembly Data
Pmo_ASM_01 Assembly Data I (EST) Various tissues 10,536 Assembly EST sequences of Thai P. Monodon EST database
Pmo_ASM_02 Assembly Data II (EST) Various tissues 54,058 Assembly EST sequences of Thai P. Monodon EST database, Taiwan EST
Pmo_ASM_03 Assembly Data III (EST) Various tissues 98,706 Assembly EST sequences of Thai P. Monodon EST database, Taiwan EST and JICA RNAseq



Table 2. Number and Information of Whiteleg Shrimp's Genomics data collected from EST and RNA sequencing databases
Litopenaeus vannamei database
IRN code Library Name Tissue No. of Seq Source
Pva_EST L. vannamei EST
Pva_EST_01 L. vannamei microarray 2005 gills, hepatopancreas, muscle and hemocyte 13,047 https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GPL381
Pva_RSQ L. vannamei RNA sequencing
Pva_RSQ_01 Hemocytes-Taura Syndrome virus infection Hemocytes of juvenile cultured shrimp with Taura Syndrome Virus Waiting for assembly data Sookruksawong S. et al. Developmental and Comparative Immunology 41 (2013) 532-533
Pva_RSQ_02 Hemocytes-Heat stressed Vibrio parahaemolyticus infection Hemocytes of juvenile cultured shrimp exposed to heat-stress and challenged with Vibrio parahaemolyticus W213,368 Pakpoom Boonchuen
Pva_RSQ_03 RNAseq of shrimp transcriptome after Vibrio parahaemolyticus AHPND (VPAHPND) challenge Hemocytes Gathering data Maralit M.B. et al. Fish and Shellfish Immunology 81 (2018) SRA accession number SRP137285