GEO DataSets

(Submitter supplied) Comparisons of gene expression profiles in hepatopancreas and ovary of domesticated broodstock at different ovarian maturation stages were made through a cDNA microarray in the black tiger shrimp (Penaeus monodon). Differentially expressed genes were identified through the microarray analysis, and the microarray results were confirmed by real-time PCR. Selected genes were further characterized.

Organism:

Penaeus monodon

Type:

Expression profiling by array

Platform:

GPL24696

16 Samples

Download data: GPR

(Submitter supplied) The study aimed to determine effect of polychaetes as a shrimp feed on male reproductive maturation at transcriptional level through a cDNA microarray in the black tiger shrimp (Penaeus monodon). Thus, the experiment was to compare transcriptomic profiles of two different parts of reproductive organs, namely testes (TT) and vas deferens (VD), of domesticated 17-month-old between two different feeds, namely commercial pellet and polychaetes after feeding for one month. more...

Organism:

Penaeus monodon

Type:

Expression profiling by array

Platform:

GPL22536

16 Samples

Download data: GPR

(Submitter supplied) Microarray analysis of the gill tissues of WSSV infected shrimp (P. monodon) at different time intervals 6 hrs, 24 hrs, 48 hrs and moribund stage of post WSSV infection was carried out to identify differentially expressed genes in response to WSSV infection. The shrimps in WSSV challenege experiment were challenged through intra muscular route with known concentration of virus. The important immune genes identified would be further characterized by sequence analysis and gene expression profile would be validated by real time PCR

Organism:

Penaeus monodon

Type:

Expression profiling by array

Platform:

GPL18013

16 Samples

Download data: TXT

(Submitter supplied) Comparisons of gene expression profiles from testis of wild and domesticated male brooders were made through a cDNA microarray in the black tiger shrimp (Penaeus monodon). Differentially expressed genes were identified through the microarray analysis, and the microarray results were confirmed by real-time PCR. Selected genes were further characterized.

Organism:

Penaeus monodon

Type:

Expression profiling by array

Platform:

GPL10413

18 Samples

Download data: GPR

(Submitter supplied) Comparisons of gene expression profiles between ovaries of before (day 0) and after eyestalk ablation (days 1, 4 and 7) of domesticated 14-month-old black tiger shrimp (Penaeus monodon) were made using a cDNA microarray. Differentially expressed genes were identified through the microarray analysis, and the microarray results were confirmed by real-time PCR. Selected genes were further characterized.

Organism:

Penaeus monodon

Type:

Expression profiling by array

Platform:

GPL10413

8 Samples

Download data: GPR

(Submitter supplied) Background: Aquaculture of the black tiger prawn Penaeus monodon remains severely constrained by an almost total dependence on wild-caught broodstock. Reliance on wild-caught broodstock stems, for the most part, from reduced reproductive potential of captive-reared females. Reproductive performance of captive-reared females is usually characterised by longer latency period, lower egg production, egg hatch rates and post-larval survivorship compared with their wild-caught counterparts. more...

Organism:

Penaeus monodon

Type:

Expression profiling by array

Platform:

GPL14373

38 Samples

Download data: TXT

(Submitter supplied) Comparisons of gene expression profiles between testis and ovary of juvenile and wild brooders were made through a cDNA microarray in the black tiger shrimp (Penaeus monodon). Differentially expressed genes were identified through the microarray analysis, and the microarray results were confirmed by real-time PCR. Selected genes were further characterized.

Organism:

Penaeus monodon

Type:

Expression profiling by array

Platform:

GPL10413

9 Samples

Download data: GPR

(Submitter supplied) Identification of testis-relevant genes using in silico analysis from testes ESTs and cDNA microarray in the black tiger shrimp (Penaeus monodon) A total of 4,803 ESTs from the testis library were unidirectionally sequenced and analyzed in silico using a customizable data analysis package, ESTplus. A total of 2,702 unique sequences from 424 contigs and 2,278 singletons were identified. Approximately, 1,134 sequences from the total of 2,702 unique sequences (contigs and singletons) are homologous to genes with known functions. more...

Organism:

Penaeus monodon

Type:

Expression profiling by array

Platform:

GPL9679

3 Samples

Download data: GPR

(Submitter supplied) To construct the first in-house version of cDNA microarrays for P. monodon, the ovary and testes EST libraries were used as templates for reproduction-specific cDNA microarray (ReproArray) fabrication. ReproArray was used to analyze large-scale gene expression and to demonstrate capacity for studies of reproduction-relevant genes. Keywords: time couse

Organism:

Penaeus monodon

Type:

Expression profiling by array

Platform:

GPL7049

3 Samples

Download data: GPR

(Submitter supplied) Cultured shrimp are continuously exposed to variable environmental conditions which are associated with stress and subsequent outbreaks of disease. To investigate the effect of environmental stress on Penaeus monodon gene expression, a 3853 random cDNA microarray chip was generated with clones originating from 6 stress-enriched hemocyte libraries generated by suppression subtractive hybridization and a normal hemocyte cDNA library. more...

Organism:

Penaeus monodon

Type:

Expression profiling by array

Platform:

GPL4890

48 Samples

Download data

(Submitter supplied) A cDNA microarray was constructed from the EST libraries of P. monodon, consisting of 6826 features. Protocol: Array Design: Amplification Approximately 5000 sequences will be amplified either from plasmids of EST clones or from the first strand cDNA template. For amplification from EST clones, PCR reactions were optimized considering the following parameters: (1) amounts of template, (2) types of Taq DNA polymerase, (3) units of Taq DNA polymerase, and (4) MgCl2 concentrations. more...

Organism:

Penaeus monodon

1 Series

16 Samples

Download data

(Submitter supplied) Array Design: Amplification Approximately 5000 sequences will be amplified either from plasmids of EST clones or from the first strand cDNA template. For amplification from EST clones, PCR reactions were optimized considering the following parameters: (1) amounts of template, (2) types of Taq DNA polymerase, (3) units of Taq DNA polymerase, and (4) MgCl2 concentrations. In all experiments, the reactions were performed using purified plasmids as templates in a 96-well format PCR plate (Axygen) with final concentrations of the following components: 0.3 mM dNTPs, 1X buffer, 0.4 M each primer (LM13F: CAC GAC GTT GTA AAA CGA CGG CCA G and LM13R: CAT GGT CAT AGC TGT TTC CTG T, BioBasic). more...

Organism:

Penaeus monodon

1 Series

16 Samples

Download data

(Submitter supplied) designed by Genotypic Technology Private Limited (AMADID: 041733) Protocol: www.chem.agilent.com

Organism:

Penaeus monodon

1 Series

16 Samples

Download data

(Submitter supplied) Microarray construction. A total of 1152 sequences were selected from the cDNA libraries created for this study together with an additional 387 sequences obtained from P. monodon EST collections from publicly available databases (GenBank (http://www.ncbi.nlm.nih.gov)) for inclusion as probes on the microarrays. Oligonucleotide microarrays were produced by CombiMatrix corporation (Mukilteo, USA) using the CustomArray™ 4×2K platform which contains four identical, independent 2240-feature microarrays on each slide. more...

Organism:

Penaeus monodon

1 Series

38 Samples

Download data

(Submitter supplied) Array Design: Amplification Approximately 5000 sequences will be amplified either from plasmids of EST clones or from the first strand cDNA template. For amplification from EST clones, PCR reactions were optimized considering the following parameters: (1) amounts of template, (2) types of Taq DNA polymerase, (3) units of Taq DNA polymerase, and (4) MgCl2 concentrations. In all experiments, the reactions were performed using purified plasmids as templates in a 96-well format PCR plate (Axygen) with final concentrations of the following components: 0.3 mM dNTPs, 1X buffer, 0.4 uM each primer (LM13F: CAC GAC GTT GTA AAA CGA CGG CCA G and LM13R: CAT GGT CAT AGC TGT TTC CTG T, BioBasic). more...

Organism:

Penaeus monodon

3 Series

35 Samples

Download data

(Submitter supplied) Array Design: Amplification Approximately 5000 sequences will be amplified either from plasmids of EST clones or from the first strand cDNA template. For amplification from EST clones, PCR reactions were optimized considering the following parameters: (1) amounts of template, (2) types of Taq DNA polymerase, (3) units of Taq DNA polymerase, and (4) MgCl2 concentrations. In all experiments, the reactions were performed using purified plasmids as templates in a 96-well format PCR plate (Axygen) with final concentrations of the following components: 0.3 mM dNTPs, 1X buffer, 0.4 M each primer (LM13F: CAC GAC GTT GTA AAA CGA CGG CCA G and LM13R: CAT GGT CAT AGC TGT TTC CTG T, BioBasic). more...

Organism:

Penaeus monodon

1 Series

3 Samples

Download data: TXT

(Submitter supplied) EST Library construction The P. monodon testes and ovary libraries were previously constructed using a ZAP-cDNA synthesis and cloning kit (Strategene, #200400, La Jolla, CA). Briefly, cDNAs with fragments length at least 500 bp were cloned into dephosphorylated EcoRI/XhoI-digested Uni-ZAP XR and transfected into E.coli XL1-Blue MRF’. The resulting lambda library was converted into a pBluescript library by in vivo excision according to the manufacturer’s protocol. more...

Organism:

Penaeus monodon

1 Series

3 Samples

Download data

(Submitter supplied) Construction of cDNA libraries Suppression subtractive hybridization (SSH) (Diatchenko et al. 1996), was used to generate cDNA libraries enriched for genes that are regulated under different types of environmental stress exposure. Double stranded cDNA was prepared from 2 µg poly A RNA extracted from shrimp haemocytes (pool of three shrimp), digested with Rsa I, and tester and driver cDNAS generated for treatments and controls using the PCR-Select cDNA Subtraction Kit (Clontech) according to the manufacturer’s instructions. more...

Organism:

Penaeus monodon

1 Series

48 Samples

Download data