COTTONGEN-LIST March 2013

cottongen-list@cottongen.org

3 participants
3 discussions

CottonGen and ICGI Mailing List Clarification

by Main, Doreen

Dear Cotton Community Members, Please accept our apology for the email you received yesterday containing unsupported statements about a fellow member of CottonGen and ICGI. To rectify this situation we include below a clarification offered to us by Dr. Paterson. In the future, any communication requests from members to the CottonGen/ICGI mailing lists will be sent to the steering committees for approval before posting. Sincerely, Dorrie Main CottonGen Principal Investigator Note from Dr. Andrew Paterson in reply to Dr. Thea Wilkins second email regarding access to genomic resources. Having noted yesterday the merit of Dr. Wilkins libraries, ICGI members also may wish to consider that non-profit distribution centers including Texas A&M, CUGI/AGI, and PGML have BACs from the same genotypes used by Dr WIlkins. While these BACs would lack the value added by Dr Wilkins sequencing, they may be much less costly to obtain than those from a private vendor. Dr. Wilkins unsupported comments about my BAC distribution record are incorrect. My policies were formulated under an NSF grant on which Dr. Wilkins was the PI. These policies and my record have been regularly reviewed and found satisfactory by my research sponsors. We have had an online ordering system (http://www.plantgenome.uga.edu/catalog/index.php?cPath=1) for many years, and requests are filled promptly. All who have requested BACs from me have received them. Likewise, our probe sequences were deposited in Genbank soon after their completion, and genome sequences that I have overseen were publicly released nearly a year (for cotton, and nearly 2 years for sorghum) in advance of publication. Best wishes to all. Andrew Paterson, Chair, ICGI and Regents Professor, University of Georgia. Dorrie Main, Ph.D. Associate Professor of Bioinformatics Department of Horticulture Washington State University 45 Johnson Hall Pullman, WA 99164-6414 Tel: 509-335-2774 Email: dorrie(a)wsu.edu URL: www.bioinfo.wsu.edu

11 years, 8 months

Re: [CottonGen] [ICGI] A survey about using cotton genome resources

by Andrew Paterson

Some may wish to be aware that there are other public BAC libraries available (on a cost-recovery basis) for the same genotypes, although they are not the specific libraries that were used in Thea's sequencing. On Mar 26, 2013, at 1:05 PM, "Yu, Jing" <jing.yu(a)wsu.edu> wrote: > Dear Cotton Researchers, > > Dr. Thea WIlkins would like to release all of her genome resources through Amplicon Express (for lists the type and cost of services, please visit http://ampliconexpress.com), as they maintain excellent QC and provide a range of services. However, she needs know if there is sufficient interest by the community for Amplicon to provide such services. > > The resources are 6 BAC libraries of excellent quality with >125 kb inserts as follows > ~8X MboI G. Arboreum AKA8401 library anchored by Andy Paterson > ~6X BamHI G. arboreum AKA 8401 library used to generate sequence-based physical map > ~6X EcoRI G. arboreum AKA 8401 library used to generate sequence-based physical map >> 5X Gossypiodes Kirkii BAC library generated for making sequence-based physical map >> 5X G. Kirkii library generated for making a sequence-based physical map > 5X G. hirsutum TM1 BAC library > > Please let us know if you are interested in using these resources via services provided by Amplicon Express within the next two weeks. If there is not enough interest, these important resources, which are not currently available to the community, will be lost to the community forever. > > Please reply to this email with either a “yes” or “no” (please use reply and not reply all). > > Thank you for your help. > > Dr. Jing Yu > CottonGen Curator > _______________________________________________ > Main Bioinformatics Laboratory > ICGI-LIST mailing list > ICGI-LIST(a)cottongen.org > > > ________________ Andrew Paterson Regents Professor and Head, Plant Genome Mapping Laboratory (Dept #398) University of Georgia 111 Riverbend Road, Rm 228 Athens GA 30605 (for UPS deliveries the zip code is 30605) Phone 1-706-583-0162; Fax 1-706-583-0160; Email paterson(a)plantbio.uga.edu Web site: http://www.plantgenome.uga.edu/ Program Coordinators: Anne A. Ogden, 706-583-0166, ogden(a)uga.edu Melissa D. Brock, 706-583-0161, mbrock(a)uga.edu

11 years, 8 months

A survey about using cotton genome resources

by Yu, Jing

Dear Cotton Researchers, Dr. Thea WIlkins would like to release all of her genome resources through Amplicon Express (for lists the type and cost of services, please visit http://ampliconexpress.com), as they maintain excellent QC and provide a range of services. However, she needs know if there is sufficient interest by the community for Amplicon to provide such services. The resources are 6 BAC libraries of excellent quality with >125 kb inserts as follows ~8X MboI G. Arboreum AKA8401 library anchored by Andy Paterson ~6X BamHI G. arboreum AKA 8401 library used to generate sequence-based physical map ~6X EcoRI G. arboreum AKA 8401 library used to generate sequence-based physical map >5X Gossypiodes Kirkii BAC library generated for making sequence-based physical map >5X G. Kirkii library generated for making a sequence-based physical map 5X G. hirsutum TM1 BAC library Please let us know if you are interested in using these resources via services provided by Amplicon Express within the next two weeks. If there is not enough interest, these important resources, which are not currently available to the community, will be lost to the community forever. Please reply to this email with either a “yes” or “no” (please use reply and not reply all). Thank you for your help. Dr. Jing Yu CottonGen Curator

11 years, 8 months

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COTTONGEN-LIST March 2013