GDR-LIST

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334 discussions

PhD Opportunity at OSU on Black Raspberry Plant Breeding-Genetics-Genomics

by Bassil, Nahla

Dear Colleagues, We would like you to know of this opportunity for a PhD student- Thanks, Nahla Nahla V. Bassil Plant Molecular Geneticist USDA-ARS National Clonal Germplasm Repository 33447 Peoria Rd. Corvallis, OR 97333-2521 Tel: (541) 738-4214 Nahla.bassil(a)ars.usda.gov<mailto:Nahla.bassil@ars.usda.gov> Oregon State University - College of Agriculture Department of Horticulture USDA-ARS, Corvallis, Oregon Graduate Research Assistant Position We are seeking a highly motivated Ph.D. student with interest in both plant breeding and bioinformatics. The primary objective of the research project is to develop molecular markers for aphid resistance in black raspberry using a combination of omics and quantitative genetic approaches. The student will work closely with USDA-ARS researchers as well as Oregon State University faculty. The responsibilities of the candidate are: 1) to conduct research to understand aphid resistance/susceptibility mechanisms in black raspberry breeding populations; 2) identify QTLs, candidate genes, and underlying disease resistance pathways using omics and bioinformatics approaches; 3) validate QTLs in wider black raspberry germplasm; 4) support development of research proposals; and 5) present at international conferences and publish peer-reviewed journal articles. Specific Work Responsibilities: Genetics of aphid resistance in black raspberry (85%): QTL and association mapping to dissect genetic basis of aphid resistance. Bioinformatics to mine high-throughput omics data for candidate gene identification. Design molecular biology and transcriptomics experiments to identify and validate candidate genes. Research Communication (10%): Oral presentations and posters at scientific meetings, seminars, workshops. Proposal Development (5%): Motivated and creative thinker to support development of research proposals for basic and applied plant genetics and molecular biology. Minimum Qualifications: M.S. in plant biology, plant genetics/breeding, plant pathology, or a related field. Ambitious and self-motivated. Preferred Qualifications: Course work or undergraduate research experience in bioinformatics or computer programming. Experience in a molecular biology laboratory, greenhouse and field for plant pathology, molecular markers and quantitative genetics desirable. Candidate should have excellent writing and oral communication skills. Candidate should be able to multi-task, work independently and as part of a team, and have good time management and attention to detail. Creativity and pro-activeness are assets, as well as enthusiasm to work and interact in an international scientific environment. Interested candidates should send letter of interest, Curriculum Vitae, and names and contact information for three references to: Kelly Vining, Ph.D., Assistant Professor Department of Horticulture Oregon State University 4019 Ag and Life Sciences Corvallis, Oregon, USA Email: kelly.vining(a)oregonstate.edu<mailto:kelly.vining@oregonstate.edu> This electronic message contains information generated by the USDA solely for the intended recipients. Any unauthorized interception of this message or the use or disclosure of the information it contains may violate the law and subject the violator to civil or criminal penalties. If you believe you have received this message in error, please notify the sender and delete the email immediately.

9 years

Horticulture Research Conference- East Malling 16-20th July 2017

by Richard Harrison (EM)

Dear all, I am pleased to invite you all to the 4th International Horticulture Research Conference which we are holding at East Malling on the 16th-20th July 2017. We have a great line up of speakers from around the globe and are now accepting abstracts for selected talks and posters. The conference includes a half day at Fruit Focus- the soft fruit show as well as optional tours to London and beyond! Visit the website - http://www.hortres-conference.org/ for more information. Key dates are: * Early Registration Before April 30, 2017 * Regular Registration After May 1, 2017 * Registration Deadline June 15, 2017 * Conference July 16-20, 2017 Session Themes are: 1. Genome engineering in horticultural crops 2. Fruit development, functional food and quality 3. Flowering and environmental adaptation 4. Root-shoot interactions and grafting 5. Plant-microbe insect and environment interactions 6. Post-harvest biology 7. Evolutionary biology and comparative genomics 8. Precision horticulture Hope to see you there! Richard Dr Richard Harrison Head of Department | Genetics, Genomics and Breeding NIAB-EMR | New Road, East Malling, Kent, ME19 6BJ ' | 01732 52 3747 (| 07773 059456 •| richard.harrison(a)emr.ac.uk <mailto:richard.harrison@emr.ac.uk> •| http://www.emr.ac.uk/projects/harrisonlab/ This email and any files transmitted with it may contain confidential or privileged information which are intended for the addressee only. Access to this email by anyone else is unauthorised and any disclosure, copying, distribution or any action taken or omitted to be taken or reliance on it, is prohibited and may be unlawful. If you are not the named addressee or the person responsible for delivering the message to the named addressee, please delete the email and any attachments and contact: enquiries:emr.ac.uk For any information about NIAB EMR or for a copy of the Terms of Business, please contact +44 (0)1732 843833 or visit www.emr.ac.uk. NIAB EMR is a charitable company limited by guarantee | Registered in England : 09894859 | Registered Charity : 1165055. Registered office: NIAB EMR, Huntingdon Road, Cambridge, Cambridgeshire, United Kingdom, CB3 0LE, UK.

9 years, 1 month

GDR Training Workshop at PAG 2017

by Main, Doreen

Hi Folks, This year at PAG we will have a GDR workshop focusing on users of GDR providing training on various aspects of GDR. The 2 hr workshop (#4316) will be held between 4 to 6 PM on Saturday January 14 in the California Room and afterwards we can go and socialize somewhere :-) The topics and presenters are as follows: 04.00 PM Using GDR: An Overview<https://urldefense.proofpoint.com/v2/url?u=https-3A__pag.confex.com_pag_xxv… > - Sook Jung 04:20 PM Use of Strawberry Genomic Resources in GDR<https://urldefense.proofpoint.com/v2/url?u=https-3A__pag.confex.com_pag_xxv… > - Richard J. Harrison 04:40 PM Using the New Apple Genome Assembly v4.0 Data in GDR<https://urldefense.proofpoint.com/v2/url?u=https-3A__pag.confex.com_pag_xxv… > - Riccardo Velasco, 05:00 PM The GDR Is a Critical Resource for Developing and Refining Trait-Predictive DNA Tests<https://urldefense.proofpoint.com/v2/url?u=https-3A__pag.confex.com_pag_xxv… > - Cameron Peace 05:20 PM Using the Field Book App and BIMS in GDR for Peach Breeding<https://urldefense.proofpoint.com/v2/url?u=https-3A__pag.confex.com_pag_xxv… > - Ksenija Gasic, 05:40 PM - Open Discussion on GDR<https://urldefense.proofpoint.com/v2/url?u=https-3A__pag.confex.com_pag_xxv… > - Michael Coe If you are able to attend, would appreciate if you could add your name to the doodle poll that was emailed to you separately. Please forward to any students or other program members who may not be part of this list. Cheers Dorrie and Sook Dorrie Main, PhD Professor of Bioinformatics Department of Horticulture Washington State University 45 Johnson Hall Pullman, WA 99164-6414 Tel: 509-335-2774 (office) Email: dorrie(a)wsu.edu<mailto:dorrie@wsu.edu> URL: www.bioinfo.wsu.edu<http://www.bioinfo.wsu.edu/>

9 years, 1 month

GDR Training Workshop at PAG

by Dorrie Main (via Doodle)

Hi there, Dorrie Main (dorrie(a)wsu.edu) invites you to participate in the Doodle poll "GDR Training Workshop at PAG." 04.00 PM Using GDR: An Overview - Sook Jung 04:20 PM Use of Strawberry Genomic Resources in GDR - Richard J. Harrison 04:40 PM Using the New Apple Genome Assembly v4.0 Data in GDR - Riccardo Velasco, 05:00 PM The GDR Is a Critical Resource for Developing and Refining Trait-Predictive DNA Tests - Cameron Peace 05:20 PM Using Field Book App and Bims in GDR for Peach Breeding - Ksenija Gasic, 05:40 PM - Open Discussion on GDR - Michael Coe Participate now https://doodle.com/poll/93epu5inh276ffnd?tmail=poll_invitecontact_participa… What is Doodle? Doodle is a web service that helps Dorrie Main to find a suitable date for meeting with a group of people. Learn more about how Doodle works. (https://doodle.com/features?tlink=checkOutLink&tmail=poll_invitecontact_par…) ---------------------------------------------------------------------- You have received this e-mail because "Dorrie Main" has invited you to participate in the Doodle poll "GDR Training Workshop at PAG." ---- Doodle is also available for iOS and Android. ---- Doodle AG, Werdstrasse 21, 8021 Zürich

9 years, 1 month

Post doc position “Evolution of genomes in the genus Rosa” at the Research Institute in Horticulture and Seeds (Angers, France)

by Sook Jung

Call for applications for a 17 months Postdoctoral Fellowship on “Evolution of genomes in the genus Rosa” at the Research Institute in Horticulture and Seeds (Angers, France) A 17-months postdoctoral researcher position is available at the University of Angers (France). The project is a collaboration between the "Research Institute of Horticulture and Seeds" in Angers, astride two teams “Genetics and Diversity of Ornamentals” (GDO, http://www6.angers-nantes.inra.fr/irhs_eng/Research/GDO) and “Bioinformatics” (BioInfo, http://www6.angers-nantes.inra.fr/irhs_eng/Research/BioInfo), and the group of Pr Thomas Debener from the “Institute for Plant Genetics” at the Leibniz University of Hannover (Germany; http://www.genetik.uni-hannover.de/index.html?&L=1). The project will be a bio-informatic analysis of the evolution of genomes in the genus Rosa, at two levels: (i) the research of structural variants (SVs), and (ii) the study of the evolution of resistance gene families (see details below). Applications are open for candidates who did not have spent more than 12 months in France within the last 3 years immediately prior to the expected date of recruitment. The net salary (after taxes) is 2409.58 €/month. The opportunity to apply for AgreenSkills programmes (https://www.agreenskills.eu/) may allow to increase this salary. The beginning of the contract is expected for February or March 2017. The postdoctoral researcher will be based in Angers, regularly cited as the most pleasant city to live in France, and at proximity to the Loire Valley. Travels are planned between Angers and Hanover. Summary of the project: The rose bush is the most economically important ornamental plant and the model plant for many studies about ornamental traits (flowering, fragrance, disease resistance). The rose bush, constituting the genus Rosa, has a complex evolutionary history with interspecific hybridization events and polyploidizations. Little information about these events is presently available, mainly hypotheses drawn from sparse molecular markers. Recently, as part of an international consortium, co-coordinated by the GDO team, the first version of the genome sequence of a variety of rose (Rosa chinensis cv. ‘Old Blush’) has been obtained. In this genomic context, we propose to study the evolutionary history of the genus Rosa by resequencing different species of the genus Rosa. The objective is to understand the evolution of genomes in the genus Rosa, and especially to focus on the processes that led to the creation of wild species, including polyploid ones, which are at the base of cultivated modern roses. From short reads (paired-end) obtained from different representative Rosa species involved in cultivated rose breeding, (i) the research of structural variants (SVs as insertions, deletions, duplications, inversion, translocations …), and (ii) the study of the evolution of resistance gene families will be conducted. Mission of the postdoctoral fellow: The production of raw reads will be done before the postdoc arrival. The hired postdoc with a strong background in bioinformatics or genome analysis will make a survey of the best methods to analyze structural variations in rose genomes. He/she will then be in charge of the computer bio-analyses to research the structural variants and to study gene family evolution. Expected skills: The desired applicant is expected to be a bioinformatician or a bioanalyst with an expertise in genome assembly and genetics. Expertise in the detection of genomic rearrangements, identification of homologous relations within gene family and/or gene family evolution study would be appreciated. Programming skills for one or several languages are needed. Social skills are also important for the success of interactions. Applications should be sent by email to jeremy.clotault(a)univ-angers.fr, fabrice.foucher(a)inra.fr, debener(a)genetik.uni-hannover.de and include a letter of motivation, a CV, and names and contact information of three referees. The dead line for application is January 3rd, 2017.

9 years, 2 months

FW: RosEXEC 2017 membership election

by Ksenija Gasic

Dear Rosaceae community members, This is a final reminder to please cast your vote for RosEXEC membership. Thank you to all of those that already voted and apology for repeated emails. Voting is ending on November 4th. Thank you, Ksenija Gasic RosEXEC, Chair Elect and Membership Subcommittee Chair in 2016 From: Ksenija Gasic Sent: Monday, October 17, 2016 3:26 PM To: 'gdr-list(a)bioinfo.edu.edu' <gdr-list(a)bioinfo.edu.edu<mailto:gdr-list@bioinfo.edu.edu>>; 'rosexec-list(a)bioinfo.wsu.edu' <rosexec-list(a)bioinfo.wsu.edu<mailto:rosexec-list@bioinfo.wsu.edu>> Subject: RosEXEC 2017 membership election Dear Rosaceae Community Members: We are ready to vote on the 2017 candidates for RosEXEC. Voting begins October 17 and ends October 31st. Please go to the following web site on GDR to fill out your electronic ballot. You can learn more about any candidates' background and vision for RosEXEC contribution by clicking on their name. http://tinyurl.com/RosEXEC-voting2017 or https://www.rosaceae.org/bio/content/?title=&url=/cgi-bin/gdr/gdr_rosexec_m… The community will elect five new U.S. members and two new International members to a 3-year term. U.S.-based members vote for both U.S. candidates and International candidates. International community members vote for International candidates only. This year's slate is diverse. We encourage you to consider voting to create a leadership group that will appropriately represent the amazing diversity of the Rosaceae community. Current RosEXEC membership can be found at https://www.rosaceae.org/rosexec_2016 As a reminder, the mission of RosEXEC is to: * Serve as a communication and coordination focal point for the U.S. Rosaceae genomics, genetics and breeding community * Define research priorities based on input from the industry and research community * Facilitate scientific interaction and foster dynamic research teams * Promote research priorities * Coordinate educational efforts from the research community to the industry and the public. Thanks again to the following U.S. and International members rotating off for their service to our community: U.S. International Gina Fernandez Michael Dossett Briana Gross Riccardo Velasco Duke Lane Gregory Reighard Gayle Volk Regards, Ksenija Gasic RosEXEC, Chair Elect and Membership Subcommittee Chair in 2016

9 years, 3 months

GDR Biannual Newsletter: Oct 2016

by Main, Doreen

Hi Folks, Please find attached the second 2016 GDR biannual newsletter highlighting work completed and work in progress. Please feel free to provide feedback or suggestions for improvement to GDR. Please note we will be holding an user-taught GDR workshop at PAG on Saturday, January 14th from 4 to 6.10 PM. As always, we thank you for your support of GDR . Cheers Dorrie, Sook and the GDR team Dorrie Main, PhD Professor of Bioinformatics Department of Horticulture Washington State University 45 Johnson Hall Pullman, WA 99164-6414 Tel: 509-335-2774 (office) Email: dorrie(a)wsu.edu<mailto:dorrie@wsu.edu> URL: www.bioinfo.wsu.edu<http://www.bioinfo.wsu.edu/>

9 years, 3 months

Re: [GDR] RosEXEC 2017 membership election

by Ksenija Gasic

Dear Rosaceae community members, This is a friendly reminder to please take the time to vote for RosEXEC membership. To make sure you have enough time to do it voting has been extended till November 4th. Thank you, Ksenija Gasic RosEXEC, Chair Elect and Membership Subcommittee Chair in 2016 From: Ksenija Gasic Sent: Monday, October 17, 2016 3:26 PM To: 'gdr-list(a)bioinfo.edu.edu' <gdr-list(a)bioinfo.edu.edu>; 'rosexec-list(a)bioinfo.wsu.edu' <rosexec-list(a)bioinfo.wsu.edu> Subject: RosEXEC 2017 membership election Dear Rosaceae Community Members: We are ready to vote on the 2017 candidates for RosEXEC. Voting begins October 17 and ends October 31st. Please go to the following web site on GDR to fill out your electronic ballot. You can learn more about any candidates' background and vision for RosEXEC contribution by clicking on their name. http://tinyurl.com/RosEXEC-voting2017 or https://www.rosaceae.org/bio/content/?title=&url=/cgi-bin/gdr/gdr_rosexec_m… The community will elect five new U.S. members and two new International members to a 3-year term. U.S.-based members vote for both U.S. candidates and International candidates. International community members vote for International candidates only. This year's slate is diverse. We encourage you to consider voting to create a leadership group that will appropriately represent the amazing diversity of the Rosaceae community. Current RosEXEC membership can be found at https://www.rosaceae.org/rosexec_2016 As a reminder, the mission of RosEXEC is to: * Serve as a communication and coordination focal point for the U.S. Rosaceae genomics, genetics and breeding community * Define research priorities based on input from the industry and research community * Facilitate scientific interaction and foster dynamic research teams * Promote research priorities * Coordinate educational efforts from the research community to the industry and the public. Thanks again to the following U.S. and International members rotating off for their service to our community: U.S. International Gina Fernandez Michael Dossett Briana Gross Riccardo Velasco Duke Lane Gregory Reighard Gayle Volk Regards, Ksenija Gasic RosEXEC, Chair Elect and Membership Subcommittee Chair in 2016

9 years, 3 months

Post-Doc position in Fruit Tree Architecture at Michigan State University

by Courtney Hollender

Dear All, I am seeking a post-doc to work on a project focused on fruit tree architecture. The ad is below. Please forward to anyone you think may be interested. Thank you for your help. Sincerely, Courtney Hollender, PhD Assistant Professor Department of Horticulture Plant and Soil Science Building 1066 Bogue Street, Room A342-C Michigan State University East Lansing, MI 48824-1325 office: (517) 353-0446 — Post-Doctoral Scientist Position in Plant Architecture Available at Michigan State University The Hollender Lab in the Department of Horticulture at Michigan State University is seeking a post-doctoral scientist for a project on plant architecture. The goal of this project is to identify molecular and genetic mechanisms underlying aspects of shoot architecture, including branch orientation, and apply this knowledge to tree fruit agriculture. This project is part of an on-going program in deciduous fruit tree breeding. The research project relies on molecular biology, genetics, and genomics techniques and utilizes both model plant systems and fruit trees (eg. apple, cherry, and plum). Requirements include a PhD, a strong background in plant molecular biology and genetics, excellent written and oral communication skills, and an interest in transitioning the research to the field (orchard). A background in plant development or experience with bioinformatics (e.g. genomic and transcriptomic sequencing analysis) is preferred. No prior experience with trees or other crops is necessary, but enthusiasm for horticulture and tree fruit agriculture is required. Candidates should email a single PDF file containing their CV, contact information for three references, and a cover letter describing their interests in plant biology and future goals to Dr. Courtney Hollender (chollend(a)msu.edu <mailto:chollend@msu.edu>). Please write “Tree Architecture Post-Doc” in the subject line. The position is available as early as December 2016.

9 years, 3 months

Postdoctoral Employment Opportunity at Cornell.

by Main, Doreen

Cornell University – College of Agriculture and Life Sciences School of Integrative Plant Science – Section of Plant Pathology and Plant Microbe Biology New York State Agricultural Experiment Station, Geneva, New York Post-Doctoral Associate Position We are seeking a highly motivated postdoctoral researcher with an interest in interdisciplinary research into understanding disease resistance mechanisms in rosaceous fruit trees. The primary responsibility of this position is to identify loci, pathways, and candidate genes underlying disease resistance in rosaceous fruit trees using a combination of omics and quantitative genetic approaches. The responsibilities of the candidate are: 1) to conduct research to understand resistance/susceptibility mechanisms in rosaceous fruit trees; 2) identify QTLs, candidate genes, and underlying disease resistance pathways using omics and bioinformatics approaches; 3) support development of research proposals; and 4) present at international conferences and publish peer-reviewed journal articles. Specific Work Responsibilities: Specific focus of this position will be Genetics of Disease Resistance in Apples (85%): QTL and association mapping to dissect genetic basis of apple diseases Bioinformatics to mine high-throughput omics data for candidate gene identification Design molecular biology and transcriptomics experiments to identify and validate candidate genes Research Communication (10%): Excellent presenter at scientific meetings, seminars, workshops and to develop both web-based and traditional tools for outreach and research extension. Proposal Development (5%): Motivated and creative thinker to support development of research proposals for basic and applied plant genetics and molecular biology. Required Qualifications: Must possess a PhD in plant molecular biology, plant genetics/breeding, plant pathology, or a related field. Must have demonstrated experience with work in molecular biology laboratory, greenhouse and field for plant pathology, molecular markers and quantitative genetics. Must have first-author publications in peer-reviewed journals. Ambitious and self-motivated. Preferred Qualifications: Experience and interest in application of CRISPR/CAS based genome editing is desirable. Candidate should have excellent writing and oral communication skills, and a record of publications in highly respected peer-reviewed journals. Candidate should be able to multi-task and have good time management and attention to detail to meet tight deadlines, and work independently to initiate communications and collaborative research. Creativity and pro-activeness are assets, as well as enthusiasm to work and interact in an international scientific environment. Excellent student supervision/mentoring skills are beneficial. Interested candidates should send letter of motivation, Curriculum Vitae, and names and contact information for three references to: Awais Khan, Ph.D., Associate Professor, Plant Pathology and Plant-Microbe Biology Section, School of Integrative Plant Science, New York State Agricultural Experiment Station Cornell University 221 Barton Lab, 630 West North Street Geneva, NY 14456 USA Email: awais.khan(a)cornell.edu<mailto:awais.khan@cornell.edu> Dorrie Main, PhD Professor of Bioinformatics Department of Horticulture Washington State University 45 Johnson Hall Pullman, WA 99164-6414 Tel: 509-335-2774 (office) Email: dorrie(a)wsu.edu<mailto:dorrie@wsu.edu> URL: www.bioinfo.wsu.edu<http://www.bioinfo.wsu.edu/>

9 years, 4 months

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GDR-LIST