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332 discussions

by Dhingra, Amit

Please forward to anyone interested in your organization. Position is also listed on the GDR website. ASSOCIATE IN RESEARCH - Washington State University is seeking a highly motivated, talented, and creative scientist for a plant genomics project. Position is initially available for two years with the possibility of extension. We are looking for an individual with the demonstrated ability to primarily carry out research and manage labs. The individual will be responsible for implementing experiments as well as upkeep of lab equipment, ordering lab supplies, and training students in the lab. The successful candidate must have strong interest in plant molecular biology, bioinformatics, genomics and tissue culture. Required: a B.S. degree. Preferred: 1) a M.S. degree 2) prior experience in basic plant molecular biology techniques such as DNA extraction, cloning of PCR products, DNA sequencing, RT-PCR, plant growth, plant transformation, computer programming, and general microbial techniques; 3) ability to interact and work collaboratively with others. Application review begins immediately. Application materials includes a brief cover letter outlining interests and qualifications, curriculum vitae, transcripts, and the names and e-mail addresses of three references (please send all materials as a single PDF file). Send applications materials to Dr. Amit Dhingra, Dept. of Horticulture & Landscape Architecture, WSU, P.O. Box 646414, Pullman, WA 99164-6414. Fax: (509)335-8690; e-mail: adhingra(a)wsu.edu. AA/EE0/ADA ---------------------------------------- Amit Dhingra, Ph.D. Assistant Professor Horticulture & Landscape Architecture PO Box 646414 46 Johnson Hall Washington State University Pullman, WA 99164-6414 Phone: (509) 335-3625 Cell: (352) 246-4092 Fax: (509) 335-8690 Email: adhingra(a)wsu.edu

19 years, 1 month

by MARIAJO RUBIO

19 years, 2 months

Re: [GDR] Recommendations for Prunus QTL nomenclature

by Kimberly Lewers

Personally, I think q-Mat would be sufficient, and I like simplicity. There are other ways to address the rest of that information. Just my opinion. Kim Dr. Kim Lewers USDA/ARS Fruit Lab BARC-West, Bldg. 010A, rm. 210 10300 Baltimore Avenue Beltsville, MD 20705 office: 301-504-6768 lab: 301-504-6498 fax: 301-504-5062 e-mail: lewersk(a)ba.ars.usda.gov >>> Jim Olmstead <jwolmstead(a)wsu.edu> 09/13/06 02:17PM >>> Dear Rosaceae Community Members, During the Prunus workshop at the RGC3 Conference in New Zealand, Cameron Peace, Eben Oqundiwin and I were asked to work on developing a draft of QTL nomenclature suggestions that could be used to standardize QTL reporting within Prunus. I've attached a working document for the community as a whole to comment on. Although we have concentrated on Prunus, please note that the opportunity exists to expand these suggestions to the entire Rosaceae family. If you find this topic interesting and would like to be included in future mailings, please follow this link to the Genome Database for Rosaceae website http://www.mainlab.clemson.edu/cgi-bin/gdr/signup_ROSACEAE-QTL-LIST.cgi and sign up for the QTL topics mailing list. Once you have signed up for the mailing list, you can use the email address rosaceae-qtl-list(a)genome.clemson.edu to send mail to the subscribed group. Communications from this mailing list can then be viewed at: http://www.mainlab.clemson.edu/pipermail/rosaceae-qtl-list/ You may also address any comments and suggestions concerning this topic directly to me - you'll find the contact information below. I look forward to hearing from you! Sincerely, Jim Olmstead Cherry Breeding - Washington State University -- James Olmstead WSU-Prosser 24106 N. Bunn Rd. Prosser, WA 99350 Office: 509-786-9249 Fax: 509-786-9370 Email: jwolmstead(a)wsu.edu

19 years, 3 months

Recommendations for Prunus QTL nomenclature

by Jim Olmstead

Dear Rosaceae Community Members, During the Prunus workshop at the RGC3 Conference in New Zealand, Cameron Peace, Eben Oqundiwin and I were asked to work on developing a draft of QTL nomenclature suggestions that could be used to standardize QTL reporting within Prunus. I've attached a working document for the community as a whole to comment on. Although we have concentrated on Prunus, please note that the opportunity exists to expand these suggestions to the entire Rosaceae family. If you find this topic interesting and would like to be included in future mailings, please follow this link to the Genome Database for Rosaceae website http://www.mainlab.clemson.edu/cgi-bin/gdr/signup_ROSACEAE-QTL-LIST.cgi and sign up for the QTL topics mailing list. Once you have signed up for the mailing list, you can use the email address rosaceae-qtl-list(a)genome.clemson.edu to send mail to the subscribed group. Communications from this mailing list can then be viewed at: http://www.mainlab.clemson.edu/pipermail/rosaceae-qtl-list/ You may also address any comments and suggestions concerning this topic directly to me - you'll find the contact information below. I look forward to hearing from you! Sincerely, Jim Olmstead Cherry Breeding - Washington State University -- James Olmstead WSU-Prosser 24106 N. Bunn Rd. Prosser, WA 99350 Office: 509-786-9249 Fax: 509-786-9370 Email: jwolmstead(a)wsu.edu

19 years, 3 months

Recommendations for Prunus QTL nomenclature

by Jim Olmstead

19 years, 3 months

GDR Newsletter May 2006

by Sook Jung

GDR Newsletter May 2006 Welcome to the fifh issue of the GDR newsletter. This newsletter is to inform users about new or updated data and features in GDR and community related news. Please feel free to provide feedback and news either directly by email or via our online form. The online version can be found at http://www.mainlab.clemson.edu/gdr/newsletter/newsletter0506.shtml Attached is the pdf version of this newsletter. Community News White Paper The US National Rosaceae Genomic, Genetics and Breeding Executive Committee have completed the US white paper on Rosaceae Genomics. It can be downloaded from GDR and any comments can be addressed to the executive committee chair, Dr Amy Iezonni. Funding 1. A US based proposal, supported by strong international collaboration, is being submitted to the NSF Plant Genome Comparative Sequencing program in June. We are proposing to sequence the peach genome as a reference for Rosaceae, with skim sequencing of strawberry and apple, and targeted deep coverage of selected loci across multiple species. For more information contact Bryon Sosinski of NC State. 2. A US based proposal is being submitted to the NSF Networking program in June to fund a Rosaceae Informatics Network where international bioinformatics researchers will meet regularly and develop a collaborative bioinformatics infrastructure for the community database. For more information contact Dorrie Main or Bert Abbott. Conferences The 3rd International Rosaceae Genomics Conference was held March 19-22, 2006, in Napier, New Zealand. Download the conference outcomes and the abstracts from this meeting. The 4th International Rosaceae Genomics Conference is scheduled to be held in Pućon, Chile in March 2008. More details will be posted in the GDR conferences page as they become available. Employment A faculty position in plant breeding is available at the Pontificia Universidas Catolica de Chile. What's new at GDR? 1. SNPs (Single Nucleotide Polymorphisms) 2. Updates to the peach physical map 3. Updates to the Comparative Mapping Viewer CMap 4. Marker/Map data template available 5. Rosaceae Genomics White papers 6. Species page/Project page 7. New header bar 8. Community pages and mailing lists 9. New publication from GDR 10. Additions to the publication database 1. SNPs (Single Nucleotide Polymorphisms) The new Fragaria, Malus, Prunus, Pyrus, and Rosa unigenes have been searched for SNPs using the software package AutoSNP. A total of 14,801 SNPs are available to be viewed and searched, including 10426 SNPs from Malus, 3776 from Prunus, 316 from Rosa, and 283 from Fragaria. 2. Updates to the peach physical map The latest peach physical map contains 18387 BACs and 1367 contigs. Physical length of the contigs is appoximately 210-230Mb and that of the anchored contigs is 33Mb. WebFPC / WebChrom displays the peach physical map. Anchored peach BAC contigs can be accessed directly from the prunus reference TxE map from the GDR map viewer. 3. Updates to the Comparative Mapping Viewer CMap Four new maps (Apricot GxV F1 2002, Apricot LxL F2 2003, Peach AxJ 2005 and 815x903BC diploid Fragaria 2006) have been added to the genetic maps available through CMap. This now makes a total of 24 Rosaceae CMaps are available through CMap at GDR. These include: Prunus: Prunus bin map 2005, TxE almond x peach F2 2004, Myrobalan Plum x Almond- Peach hybrid 2004, GxN almond x peach F2 2001 Peach: Peach AxJ 2005, Peach PMP2 2005, Peach peach x P. ferganensis BC1 PxF 2001, Peach JxF 2004, Peach Sc x B 1998 Apricot: Apricot GxV F1 2002, Apricot LxL F2 2003 Almond: Almond FxT 2000, Almond FxB F1 1998 Sour Cherry: PcerasusEB, PcerasusRS Strawberry: FVxFN diploid Fragaria reference map, 815x903BC diploid Fragaria 2006 Apple: MNY75441-58, MNY75441-67, MWijcik_McIntosh, MRomeBeauty, MRomeBeauty_2, MWhiteAngel, MWhiteAngel_2 If you have mapping data that we can add, please contact us and we will work with you to make your data available via GDR. 4. Marker/Map data template available Efforts are underway to curate more extensive genetics data to GDR, and data templates for map/marker/trait/polymorphism/gene/QTL/Diversity are available. 5. Rosaceae Genomics White papers The US National Rosaceae Genomic, Genetics and Breeding Executive Committee have completed the US white paper on Rosaceae Genomics. They can be downloaded from GDR and any comments can be submitted to the executive committee chair, Dr Amy Iezonni. 6. Species page/Project page GDR has been reorganized to enhance navigation in the website. We have created specific species pages, under each genus where you can access all the information related to that species in GDR. Go to apple, prunus, almond, apricot, cherry, peach, rose, strawberry pages for all GDR structural genomics, functional genomics and funded project information. 7. New header bar Dropdown and left side navigation bars remodeled to enhance ease of access to GDR data. 8. Community pages and mailing lists The community page at GDR has been modified to make it easier to access the community pages of interest. In addition new International and US communication pages have been added, with new mailing lists to join (via a web form). We encourage you to join the appropriate mailing lists and use them to communicate to the community using these tools. 9. New publication from GDR Synteny conservation between the Prunus genome and both the present and ancestral Arabidopsis genomes. Sook Jung, Dorrie Main, Margaret Staton, Ilhyung Cho, Tatyana Zhebentyayeva, Pere Arus and Albert Abbott. BMC Genomics 2006, 7:81 10. Additions to the publication database The publication database on GDR now contains publication data from Agricola, the catalog of articles maintained by the National Agricultural Library. 564 relevant publications are online and can be searched by title, authors, keywords, and date published. Subscription Visit our mailing lists be added/removed to the available GDR mailing lists. Once you have registered you may use the mailing lists to send out relevant information the community and it will be stored in searchable web archives. More information is available on each page on how to use them. If you have any difficulties please contact us. The GDR mailing list. The International Rosaceae Genomics Community mailing list. The USA Rosaceae Genomics Community mailing list. Work in progress 1. Efforts to integrate more extensive map/marker data We are updating our map/marker database structure to integrate the details of molecular marker data such as primer sequences, source BAC/ESTs, produce size and much more. 2. Creation of other databases within GDR We are also creating new database modules such as gene, trait loci, QTL, polymorphism/allele, germplasm, and diversity data.

19 years, 6 months

(no subject)

by Yanmin Zhu

19 years, 8 months

Team Members Needed for Planning

by Sook Jung

Dear Rosaceae colleagues, I am forwarding a note from Dr. Susan Brown at Cornell about forming four sub-committees that was discussed in Rosaceae community meeting held at IFTA conference in Hershey, PA. > Team Members Needed for Planning: > There are four general theme areas of research in the Rosaceae white paper (indicated in bold text below) and we are forming four sub committees for planning purposes. Anyone with an interest in one or more of these topics, and a willingness to participate in some pre-organization work for strategic planning are encouraged to contact the scientific coordinator for each group at the Email addresses below. Please do not reply to the list serve. We would appreciate a response by March 10th. Identifying those in each core area interested in participating in the discussion will facilitate future strategic planning. The Committee is charged with figuring out how such strategic planning will happen and how it will be structured. The entire Rosaceae community will participate in the strategic planning, but this committee sets the framework. > Reducing the dependence on chemical pesticides by improving biological resistance: Herb Aldwinckle at hsa1(a)cornell.edu. > Reducing labor costs (Plant architecture): Susan Brown at skb3(a)cornell.edu. > Improving fresh and processed fruit quality, storage and safety: Abhaya Dandekar at amdandekar(a)ucdavis.edu. Improving profitability of the Rosaceae fruit industry (abiotic stress tolerance): Michael Wisniewski at mwisniew(a)afrs.ars.usda.gov.

19 years, 9 months

Rosace Roundtable Minutes from 1-15-06 (corrected)

by Angela M. Baldo

19 years, 10 months

3rd International Rosaceae Genomics Conference - March 2006

by Encore Events

Dear All This is to remind you that, registrations for the above conference close on 15 February 2006. Registrations can be done online by visiting www.rgc3.co.nz <http://www.rgc3.co.nz/> . Please complete both sections of the registration process. If you are requiring accommodation this also needs to be reserved through us by 15 February as after that date we need to release any unallocated rooms. Please ensure that when you register you include all activities that you may wish to partake in as numbers need to be confirmed prior to conference. If you have submitted an abstract and have not registered then we remind you that you need to do so. For those who have already registered, we look forward to meeting you at Conference. Regards Sue Page Encore Events PO Box 12097, Ahuriri, Napier B 06 833 7440 F 06 833 7447 M 027 669 1345 E sue(a)encore-events.net.nz

19 years, 10 months

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