GDR-LIST

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328 discussions

IT Specialist vacancy announcement in NGRL open December 6-17

by Ksenija Gasic

A vacancy for a GS 2210-IT Specialist (Data Management)-13/14 opened today in the USDA-ARS National Germplasm Resources Laboratory (NGRL). It will close on December 17, 2018. The announcement and information about how to apply can be found on USA JOBS at ARS-S18Y-0486<https://www.usajobs.gov/GetJob/ViewDetails/518716600>. This position is an important hire for NGRL, and the entire U.S. National Plant Germplasm System, in ensuring the ongoing and long-term development and operation of GRIN and GRIN-Global. I encourage you to circulate this information to prospective applicants. Doing so does not generate any advantage for them; the position is open to all qualified U.S. citizens. Thanks- Gary Gary R. Kinard USDA-ARS Research Leader National Germplasm Resources Lab Beltsville, MD gary.kinard(a)ars.usda.gov<mailto:gary.kinard@ars.usda.gov> 301-504-5951 (voice) 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.

6 years, 3 months

Re: [GDR] Ros-Exec Meeting Minutes

by Bassil, Nahla

Made a few edits and added comments to be addressed by some of you- Thank you Lise, nahla From: rosexec-list-bounces(a)bioinfo.wsu.edu [mailto:rosexec-list-bounces@bioinfo.wsu.edu] On Behalf Of Mahoney, Lise Sent: Wednesday, December 5, 2018 1:48 PM To: gdr-list(a)bioinfo.wsu.edu; 'RosEXEC Group' <rosexec-list(a)bioinfo.wsu.edu> Subject: [Rosexec-list] Ros-Exec Meeting Minutes To all, Please find attached the meeting minutes from our October meeting. Please check them over and edit as necessary using track changes. A few items that I was not sure about I have in red font. I would like to make any further edits within the next week. The minutes includes that the next Ros Exec and Ros IGI meetings will be held at PAG January 13, 2019 from ___ to ___in Garden Salon 1. Please fill in the time if you have it. Best regards, Lise Lise L Mahoney, Ph D Research Assistant Professor University of New Hampshire Kendall Hall, 214 129 Main Street, Durham, NH 03824 603-862-1187 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.

6 years, 3 months

Reminder - Student Awards

by Mercy Olmstead

Hello everyone, Sorry about any duplication of this message! Please distribute this announcement to all your colleagues that do Rosaceae research! Please hang the attached announcement in the hallways of your department! I wanted to remind students and advisors of our NEW award for undergraduates, graduate students, and postdocs for excellence in Rosaceae research. The DEADLINE IS DECEMBER 3rd! There are some excellent students doing excellent research - and we hope to highlight their efforts at our next RosEXEC (U.S. Rosaceae Executive; https://www.rosaceae.org/community/us_rosexec) meeting in San Diego while everyone is there for the Plant and Animal Genome Conference! As a reminder: Submissions will be judged upon the following criteria: - Novelty of the research - Clear and concise presentation - Ability to have high impact on the current understanding in the field - Current and future applications of the research Awards will be presented at the U.S. RosEXEC meeting in January 2019 at the Plant and Animal Genome Meeting in San Diego, CA. Award winners do not need to be present to receive the award. Eligibility Requirements: * Full-time undergraduate, M.S., Ph.D. student, or postdoctoral student * Relevant basic or applied research in a Rosaceae crop area * Publication and first authorship in a peer-reviewed journal Submission Requirements: * Full name * Institution * Abstract * Layperson summary of the research (i.e., for the general public) to include the impact of the research on current understanding in the field and on future research All submissions should be submitted to Mercy Olmstead (RosEXEC chair) at molmstead(a)calstrawberry.org<mailto:molmstead@calstrawberry.org> by DECEMBER 3rd, 2018. Please let your colleagues and students know about this award, and distribute this announcement. If you have any questions, please contact Mercy Olmstead (molmstead(a)calstrawberry.org<mailto:molmstead@calstrawberry.org>). Thank you so much, Mercy Olmstead 2018 RosEXEC Chair Mercy Olmstead, Ph.D. Sr. Mgr. Production Research and Education California Strawberry Commission<http://californiastrawberries.com/> molmstead(a)calstrawberry.org<mailto:molmstead@calstrawberry.org> Main: (831) 724-1301 Direct: (831) 200-4682 Cell: (831) 228-2404 [Commission Logo_4cp]

6 years, 3 months

Horticultural scientist position at USDA ARS at Kearneysvill, WV

by Sook Jung

https://www.usajobs.gov/GetJob/ViewDetails/516609800?utm_medium=email&utm_s… Summary Incumbent will be assigned to the Integrated Orchard Management and Automation for Deciduous Tree Fruit Crops Research Unit, in Kearneysville, WV. The Integrated Production and Automation project develops and integrates entomological, horticultural, and engineering technology to solve major problems affecting temperate tree fruit production. Major Duties: Specific objectives of the incumbent's independent and collaborative research include: 1) identifying and understanding key whole tree and rootstock-scion interactions; 2) identifying physiological, genetic, and/or cultural mechanisms that enhance tolerance to environmental stress (drought, freezing, heat, elevated CO2), nutrient- and water use-efficiency, growth habits and/or fruit quality; 3) developing new production systems that are designed specifically for automated practices and/or for value-added products. Objectives will be met through field, greenhouse, growth chamber, and laboratory experiments. Methodologies necessary to carry out this work include: equipment and protocols to assess drought tolerance and WUE, photosynthesis, and dormancy, quantification of phytochemicals such as hormones, sugars, lipids, and other signaling molecules, molecular biology techniques, phloem/xylem sampling and analysis, tissue fixation and microscopy, horticultural techniques for assessing phenotypes associated with plant growth and development as well as fruit quality, and technologies for studying genotype-by-environment interactions. Travel Required Occasional travel - Domestic and International travel may required to attend scientific meetings, training, and conferences. Supervisory status No Promotion Potential 15 Get Outlook for iOS <https://aka.ms/o0ukef> 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.

6 years, 4 months

New Student Award Announcement!

by Mercy Olmstead

Hello to the Rosaceae Community! The U.S. Rosaceae Executive Committee has some exciting news to share with students and their advisors! This year we are introducing a new award for excellence in Rosaceae research as demonstrated through publications. There will be four awards, one each for undergraduates, M.S., Ph.D., and postdoctoral students. Submissions will be judged upon the following criteria: - Novelty of the research - Clear and concise presentation - Ability to have high impact on the current understanding in the field - Current and future applications of the research Awards will be presented at the U.S. RosEXEC meeting in January 2019 at the Plant and Animal Genome Meeting in San Diego, CA. Award winners do not need to be present to receive the award. Eligibility Requirements: * Full-time undergraduate, M.S., Ph.D. student, or postdoctoral student * Relevant basic or applied research in a Rosaceae crop area * Publication and first authorship in a peer-reviewed journal Submission Requirements: * Full name * Institution * Abstract * Layperson summary of the research (i.e., for the general public) to include the impact of the research on current understanding in the field and on future research All submissions should be submitted to Mercy Olmstead (RosEXEC chair) at molmstead(a)calstrawberry.org by DECEMBER 3rd, 2018. Please let your colleagues and students know about this award, and distribute this announcement. If you have any questions, please contact Mercy Olmstead (molmstead(a)calstrawberry.org<mailto:molmstead@calstrawberry.org>). Good luck and we are looking forward to seeing everyone at the PAG meeting for the January RosEXEC meeting! Cheers, Mercy and the RosEXEC Student Award Committee Mercy Olmstead, Ph.D. Sr. Mgr. Production Research and Education California Strawberry Commission<http://californiastrawberries.com/> molmstead(a)calstrawberry.org<mailto:molmstead@calstrawberry.org> Main: (831) 724-1301 Direct: (831) 200-4682 Cell: (831) 228-2404 [Commission Logo_4cp]

6 years, 4 months

Postdoc Position_Genetics of Disease Resistance in Apples_Cornell University

by Sook Jung

https://www.rosaceae.org/node/8454788 *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 a strong interest to study genetic mechanisms of disease resistance, and disease management in fruit trees. The candidate will have the opportunity to do excellent and cutting edge research in genomics, phenomics and quantitative genetics and will have access to world’s largest apple collection, apple orchards, and state-of-the-art computational and genome sequencing facilities. *Please read the “Required Qualifications” carefully to apply for this position.* The main responsibilities of this position are to 1) identify QTLs underlying disease resistance in bi-parental mapping populations and association mapping panels, 2) develop high-throughput phenotyping methods to screen seedlings from breeding program, and 3) develop remote-sensing methods to establish relationship between spectral changes in fruit trees in response to pathogen infection and disease severity. This position will require the design and execution of experiments in the lab, greenhouse and field as well as publishing peer-reviewed journal articles, developing research proposals, and presenting at international conferences. *Specific Work Responsibilities:* The specific focus of this position will be: *Quantitative Genetics Analysis (40%):* Design of experiments and analysis for quantitative trait loci (QTL) and association mapping of disease resistance including genomics and genotyping, inoculations, and assessment of disease. *Development and Application of HTPP, and Remote-sensing Methods (40%): *Development and application of HTPP methods to collect and process data of mapping populations to dissect genetic basis of disease resistance, and to screen seedlings from breeding program. Development and application of remote-sensing methods for early disease symptom detection in the orchards to identify and quantify disease severity for timely deployment of appropriate management. *Research Communication (15%):* Train students, publish peer-reviewed journal articles, present at scientific meetings, seminars, workshops and 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 phenomics and genetics. *Required Qualifications:* Must possess a PhD in plant genetics/breeding, plant pathology, molecular biology or a related field. Must have demonstrated experience with the collection and processing of phenotypic and genotypic data, and quantitative genetics and good experience in lab, greenhouse and field. Candidate must have skills in molecular biology, genomics, genetics, and statistics. Candidate must have a record of publications with at least two first-author publications in highly respected peer-reviewed journals and be self-motivated for data analysis and writing research articles. *Preferred Qualifications:* Experience with remote-sensing, multi-spectral imaging and high-throughput phenotyping to access biotic or abiotic stress tolerance is preferred. Candidate should be able to multi-task and have good time management and attention to detail in order to meet tight deadlines, and work independently to initiate communications and ambitious collaborative research. Creativity and proactiveness 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, a statement of contribution to diversity, equity and inclusion, <https://cals.cornell.edu/about/leadership/ofa/hr/statement-contribution-div…> and names and contact information for three references to: awais.khan(a)cornell.edu *Awais Khan, Associate Professor* *Plant Pathology and Plant-Microbe Biology* *Cornell University* 112 Barton Lab, 630 W North St, Geneva, NY 14456 USA *Phone: +1 315 787 2446* *Email: awais.khan(a)cornell.edu <awais.khan(a)cornell.edu>* *http://blogs.cornell.edu/khanlab/ <http://blogs.cornell.edu/khanlab/>*

6 years, 4 months

ASHS Workshop today at 1.45

by Main, Doreen

Hi Folks, For those of you attending the ASHS conference, just a reminder that we are having an NRSP10 workshop (see text below on talks) today 1.45-3.45 in Jefferson West. Hope you can join us. Cheers Dorrie National Research Support Project 10 (NRSP10, www.nrsp10.org) is a USDA NIFA funded, five year project (2014-2019) providing national crop database resources for under-served crops with a focus on specialty crops. It involves broad support and participation from US Land Grant Universities Experiment Stations and industry, many of whom will present updates of project features or be participants in this follow up workshop to the one held at ASHS 2017. It will be will include a series of talks by scientists who use these rosaceae (www.rosaceae.org), citrus (www.citrusgenomedb.org), and vaccinium (www.vaccinium.org) database resources to enable their genomics, genetics and breeding research, highlight new data and functionality, present ideas for further work and solicit feedback from the workshop attendees. * 1.45 - Mike Kahn: Welcome and Goals of NRSP10 Workshop<https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28821> * 1.50 PM - Meg Staton: Tripal v3, the Collaborative Online Database Platform Supporting an International Community of Plant Genome Databases<https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28815> * <https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28815> 02.05 PM – Sook Jung: New Data and Functionality in NRSP10 Databases<https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28816> * <https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28816> 02.20 PM – Trevor Rife: I<https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28817>ntegrating Free Mobile Apps into Specialty Crop Breeding and Horticultural Programs<https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28817> * <https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28817> 02.35 PM – Ksenija Gasic: Using the Tripal Breeding Information Management System to Improve Breeding Efficiency<https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28818> * <https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28818> 02.50 PM – Cameron Peace: Extending the Tripal Breeding Information System to Combine International Data for Global Performance Predictions<https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28819> * <https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28819> 03.05 PM - NSRP10 - the Next Five Year Plan: Furthering Integration of Big Data, Tools and Analysis Capability to Enable Specialty Crop Research Discovery and Improvement<https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28820> * <https://ashs.confex.com/ashs/2018/meetingapp.cgi/Paper/28820> 03.25 PM – Open Discussion 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/>

6 years, 7 months

GDR BIMS Webinar

by Sook Jung

Hi everyone, The Breeding Information Management System (BIMS) is now available in GDR. We would like to have a one hour webinar (can be extended as needed) on April 30th, 2018, 10 am PDT (1 pm EDT) to demonstrate how to use BIMS. The webinar will cover how to create a private breeding program within BIMS, how to control access levels to the personnel in their program, how to load data in templates and/or in Field Book App output, how to view/search/download data, how to perform various searches, and how to create input files for the Field Book App. You can access the sweet cherry public data in GDR BIMS and below is the tutorial on BIMS. https://www.rosaceae.org/BIMS_manual Please join us and learn what BIMS can offer to your breeding/research program! GDR/BIMS team Below is the GoToMeeting access information. ----------------------------- BIMS webinar Mon, Apr 30, 2018 1:00 PM - 2:00 PM EDT Please join my meeting from your computer, tablet or smartphone. https://global.gotomeeting.com/join/158205197 You can also dial in using your phone. United States: +1 (872) 240-3412 Access Code: 158-205-197 Joining from a video-conferencing room or system? Dial: 67.217.95.2##158205197 Cisco devices: 158205197(a)67.217.95.2 First GoToMeeting? Let's do a quick system check: https://link.gotomeeting.com/system-check

6 years, 10 months

Postdoctoral position at Cornell University

by Sook Jung

*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* The College of Agriculture and Life Science is a pioneer of purpose-driven science and Cornell University's second largest college. We work across disciplines to tackle the challenges of our time through world-renowned research, education and outreach. The questions we prove and the answers we seek focus on three overlapping concerns: natural and human systems; food, energy and environmental resources; and social, physical and economic well-being. We are seeking a highly motivated postdoctoral researcher with an interest in interdisciplinary research into understanding disease resistance mechanisms in rosaceous fruit trees. The candidate will have the opportunity to do excellent and cutting edge research in genomics, bioinformatics, and quantitative genetics and will have access to world’s largest apple collection and state-of-art computational and genome sequencing facilities. *Please read the “Required Qualifications” carefully to apply for this position.* The main responsibilities of this position are to identify QTLs, pathways, and candidate genes underlying disease resistance in rosaceous fruit trees through: 1) the application and development of bioinformatics tools for heterozygous species to integrate high throughput genotyping, DNA sequencing, RNA-Seq data with disease resistance/susceptibility phenotypes; 2) design and execution of experiments in the greenhouse and lab; as well as to 3) publish peer-reviewed journal articles; 4) help develop research proposals; and 5) present at international conferences. *Specific Work Responsibilities:* The specific focus of this position will be: *Bioinformatics and quantitative genetics analysis (70%): *Application and development of bioinformatic and quantitative genetic methods to dissect genetic basis and candidate gene identification underlying disease resistance *Research Communication (15%):* Publish peer-reviewed journal articles, present at scientific meetings, seminars, workshops and develop both web-based and traditional tools for outreach and research extension. *Experiments for assessment of disease resistance in Apples (10%):* Design of experiments, inoculations, and assessment of disease; Sample collection, DNA/RNA extraction, and sequencing *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 genetics/breeding, plant pathology, plant molecular biology, or a related field. Candidate must have excellent skills in bioinformatics, data mining, programing, and statistics. Must have demonstrated experience with high-throughput genome sequencing, RNAseq data, molecular markers and quantitative genetics and good experience in molecular biology laboratory and greenhouse. Candidate must have a record of publications with at least two first-author publications in highly respected peer-reviewed journals and be self-motivated for data analysis and writing research articles. *Preferred Qualifications:* Candidate should be able to multi-task and have good time management and attention to detail in order to meet tight deadlines, and work independently to initiate communications and ambitious collaborative research. Creativity and proactiveness 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* <awais.khan(a)cornell.edu>

6 years, 10 months

Fwd: Plant Reactome Pathway Database Webinar (February 27)

by Sook Jung

FYI ---------------------------------------------- Hi Everyone, Plant Reactome Pathway database is pleased to announce a webinar on 'Plant Reactome pathway updates and new features'. *Date: Tuesday, February 27, 2018 * *Time: 11:00 AM PST - 11:30 AM PST* *Register for the webinar <https://events-na8.adobeconnect.com/content/connect/c1/1148320334/en/events…>* *Plant Reactome <http://plantreactome.gramene.org>* ( http://plantreactome.gramene.org/) is a freely available resource for comparative analyses of plant pathways. It features Oryza sativa (rice) as a reference species for the curation of cellular-level pathway networks by employing the Reactome data model. This reference set of curated rice pathways is being used to generate gene-orthology based pathway projections for 74 additional species. In this webinar, Justin Preece <https://events-na8.adobeconnect.com/content/connect/c1/1148320334/en/events…> from Plant Reactome will summarize addition of new content and functionality, and demonstrate visualization and integration of of gene-gene interaction data on pathways using examples from Arabidopsis. Similar analysis can be done with gene sets from any of the 75 species data we host including on maize, soy, wheat, barley, sorghum, etc. We will also demonstrate how your bioinformatics resources and analysts can fetch the pathway annotations and images remotely using APIs. The Gramene webinar series consists of monthly FREE 30-min webinars during which we strive to provide a quick overview of the data, tools, and services that the Gramene Project offers for comparative genomics visualization and analysis. At the end of this webinar, participants will have an opportunity to ask questions and interact with Gramene staff. More information on the webinar and speaker can be found *here <https://events-na8.adobeconnect.com/content/connect/c1/1148320334/en/events…>* <https://events-na8.adobeconnect.com/content/connect/c1/1148320334/en/events…>*Register for the webinar <https://events-na8.adobeconnect.com/content/connect/c1/1148320334/en/events…>* * <https://events-na8.adobeconnect.com/content/connect/c1/1148320334/en/events…>* -- Pankaj Jaiswal, PhD Associate Professor Dept. of Botany and Plant Pathology 2082 Cordley Hall Oregon State University Corvallis, OR, 97331 USA

7 years

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