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Status
Public on Oct 07, 2010
Title
Agilent-025188 Custom Agilent Myzus Persicae Array
Technology type
in situ oligonucleotide
Distribution
custom-commercial
Organism
Myzus persicae
Manufacturer
Agilent
Manufacture protocol
The custom microarray used in this study was designed using the Agilent eArray platform (Agilent Technologies) by the Georg Jander Lab and is based on a previously described array containing probes for >10, 000 M. persicae unigenes produced by Sanger sequencing (Ramsey, Wilson et al. 2007) augmented with an additional 30,517 probe set designed on EST unigene sequences identified in a 454 sequencing project (Ramsey, Rider et al. 2010). The final slide layout consists of four arrays of 45,220 60-mer probes and these are produced by Agilent by in situ oligonucleotide synthesis. References: Ramsey, J. S., D. S. Rider, et al. (2010). "Comparative analysis of detoxification enzymes in Acyrthosiphon pisum and Myzus persicae." Insect Molecular Biology 19: 155-164. Ramsey, J. S., A. C. C. Wilson, et al. (2007). "Genomic resources for Myzus persicae: EST sequencing, SNP identification, and microarray design." BMC Genomics 8.
Description
All sequences on which the array probes are designed are publically available at http://www.aphidbase.com/aphidbase/downloads under Myzus454(fasta) and MyzusSanger(fasta).
Submission date
Feb 26, 2010
Last update date
Oct 07, 2010
Contact name
Chris Bass
E-mail(s)
chris.bass@rothamsted.ac.uk
Phone
01582763133
Organization name
Rothamsted Research
Department
Biological Chemistry
Street address
West Common
City
Harpenden
State/province
Hertfordshire
ZIP/Postal code
AL52JQ
Country
United Kingdom
Samples (16)
GSM516213 , GSM516214 , GSM516215 , GSM516216 , GSM516217 , GSM516218
Series (2)
GSE20542
Comparison of two clones of Myzus Persicae (Sulzer) (Hemiptera: Aphididae)
GSE24629
Comparison of two clones (4106a and FRC) of Myzus Persicae (Sulzer) (Hemiptera: Aphididae)
Data table header descriptions
ID
accessions
SEQUENCE
ControlType
ProbeName
GeneName
SystematicName
Description
SPOT_ID
Data table
ID
accessions
SEQUENCE
ControlType
ProbeName
GeneName
SystematicName
Description
SPOT_ID
1
1
GE_BrightCorner
GE_BrightCorner
GE_BrightCorner
-- control
2
1
DarkCorner
DarkCorner
DarkCorner
-- control
3
1
DarkCorner
DarkCorner
DarkCorner
-- control
4
1
DarkCorner
DarkCorner
DarkCorner
-- control
5
1
DarkCorner
DarkCorner
DarkCorner
-- control
6
1
DarkCorner
DarkCorner
DarkCorner
-- control
7
1
DarkCorner
DarkCorner
DarkCorner
-- control
8
1
DarkCorner
DarkCorner
DarkCorner
-- control
9
1
DarkCorner
DarkCorner
DarkCorner
-- control
10
1
DarkCorner
DarkCorner
DarkCorner
-- control
11
1
DarkCorner
DarkCorner
DarkCorner
-- control
12
AGTTGTTCTTCACTTATGATGGATAAAACTTTTTTGATTTATCCTTAGCGTCCCGGCCGT
0
CUST_27180_PI410703081
454Myzus_73925
454Myzus_73925
Unknown
454Myzus_73925
13
CAAACATCATTTGAATTATGCGTGTGGCATTAACCCACAATTTTTAATGTATAGTTCGCC
0
CUST_19711_PI410703081
ACYPI50170
454Myzus_62489
Unknown
454Myzus_62489
14
jander|contig5175
TTGGGTTTTGGTCCACTTGAACCATGATGACGCTTTTGATACATCTGCAAATTGTAAAAT
0
M_persicae5175a
unknown protein
contig5175
unknown protein
contig5175
15
jander|contig8039
GTGCATGCTGAAATGTTAACCATGAGATTTGTACAATTTGACACGACTTTTGATCATCCA
0
M_persicae8039a
similar to CG31232-PA, isoform A
contig8039
similar to CG31232-PA, isoform A
contig8039
16
GTTTAGAACCCAAATATAGGCTTCAAAGGCACGGACTTTTCGAAAAGAAACTCAAACCCG
0
CUST_10426_PI410703081
ACYPI009454
454Myzus_33040
LOC100168780 similar to ribosomal protein S24e [Acyrthosiphon pisum]
454Myzus_33040
17
TTTTTTGGTTTTATTTTATACAATCGGATTCTTATATGGTGAAAAAATTAAATGTCTAAC
0
CUST_14299_PI410703081
454Myzus_55377
454Myzus_55377
Unknown
454Myzus_55377
18
jander|contig5224
CCTCTAGCTCTTATGGAAGACCTAGAAGTAGAAACAGCTGCATAATGTGATAACTAATGG
0
M_persicae5224a
lethal (2) giant larvae
contig5224
lethal (2) giant larvae
contig5224
19
TACGAACAGTAAGAATTTAAGTTTATATGTAAGACTGTCAGTGCAATTTCTGTAGTTTGG
0
CUST_21328_PI410703081
454Myzus_64661
454Myzus_64661
Unknown
454Myzus_64661
20
AAATGGCTACAAAGTTGATAATGTTTGCCGCTTTGTTCGGGCACATGGCCTTTGCTTACC
0
CUST_9567_PI410703081
ACYPI000372
454Myzus_32113
LOC100158955 similar to cuticle protein [Acyrthosiphon pisum]
454Myzus_32113
Total number of rows: 45220 Table truncated, full table size 7020 Kbytes .
Supplementary data files not provided