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22 discussions

by Yu, Jing

From: Jones, Don <DJones(a)cottoninc.com<mailto:DJones@cottoninc.com>> Sent: Sunday, September 05, 2021 6:25 PM To: Jones, Don <DJones(a)cottoninc.com<mailto:DJones@cottoninc.com>> Subject: Death of Dr. Sukumar Saha Friday Dr. Sukumar Saha passed away from a heart attack. His obituary is shown in the link below. Please remember his family at this difficult time. https://www.lowndesfuneralhome.net/obituary/sukumar-saha<https://gcc02.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.lownd…> [cid:image001.jpg@01D7A28B.3BCB1DC0] DON C. JONES Ph.D. DIRECTOR, AGRICULTURAL AND ENVIRONMENTAL RESEARCH COTTON INCORPORATED 6399 WESTON PARKWAY CARY, NC 27513 P: 919.678.2367<tel:919.678.2367> C:919.389-3349<tel:919.389-3349> F: 919.678.2233<tel:919.678.2233> E: DJONES(a)COTTONINC.COM<mailto:DJONES@COTTONINC.COM> 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.

2 months, 3 weeks

Help us chart the future of agricultural data!

by Jung, Sook

Dear Researchers, Breeders, Database Providers, Funders, Editors, Students, Software Engineers, and other Scientists, Do you want easy access to better quality data? We are THRILLED to announce that AgBioData (https://www.agbiodata.org/) has received a three-year NSF RCN award to expand our community committed to improving quality and access to agricultural data. New activities will include organizing workshops, establishing new working groups, and developing FAIR curriculum for scientists. We are expanding the consortium and welcome new members, especially students, post-docs, big-data scientists, funding agency scientists, and members of the scientific publishing community interested in solving common FAIR data issues. We invite all of you to an important kickoff All-Hands Meeting on Sept 1st at 10 am PDT (find your local time - https://bit.ly/389VeJA). At this meeting, you will hear about our RCN objectives, the benefits of joining AgBioData, and how YOU can make a difference in the biological data environment for years to come. Please pre-register for this meeting at: https://iastate.zoom.us/meeting/register/tJcld-iqqD4vE9awJKcFGnmHwxtCNc_a7U… We are also hiring a scientist to coordinate AgBioData activities, outreach and curriculum development. Please help us publicize this opportunity! Applications should be submitted by August 31 to https://phoenix-bioinformatics.hirehive.com/job/83452/scientific-program-co…. Thank you! The AgBioData Steering Committee: Jacqueline Campbell, Darwin Campbell (coordinator), Ethy Cannon, Laurel Cooper, Lisa Harper, Eva Huala, Sook Jung, Monica Poelchau,L eonore Reiser, Meg Staton, Marcela Tello-Ruiz Sook Jung, Ph.D. Assistant Research Professor of Bioinformatics Department of Horticulture Washington State University

3 months, 1 week

Scientific Program Coordinator position for AgBioData Consortium

by Jung, Sook

Hello, A full time 3-year term Scientific Program Coordinator position for AgBioData Consortium is available. Scientific Program Coordinator Phoenix Bioinformatics and The AgBioData Consortium are seeking a Program Coordinator to support the activities of a recently funded three year NSF Research Coordination Network award (https://www.nsf.gov/awardsearch/showAward?AWD_ID=2126334&HistoricalAwards=f…<https://urldefense.com/v3/__https:/www.nsf.gov/awardsearch/showAward?AWD_ID…>). The AgBioData RCN aims to accelerate research in agricultural science by increasing the accessibility and reuse of large- scale biological data. We will do this by creating a network of Genomic, Genetic and Breeding Databases, researchers, scholarly publishers, and funders to advance data capture, findability, access, interoperability, reusability, and sustainability. This is a unique opportunity for an individual seeking to advance into a variety of careers away from the bench such as teaching at primarily undergraduate institutions, biocuration, database project management or scholarly publishing. The Program Coordinator will support the activities of the RCN and work collaboratively with the Steering Committee to ensure the timely completion of the RCN objectives. The position reports to the AgBioData Steering Committee and the coordinator will be part of a diverse and skilled professional team at Phoenix Bioinformatics. This position is a full time, remote working position with collaborators across multiple US time zones so hours can be flexible. View the job posting for further details : https://phoenix-bioinformatics.hirehive.com/job/83452/scientific-program-co…<https://urldefense.com/v3/__https:/phoenix-bioinformatics.hirehive.com/job/…> Best, Sook Sook Jung, Ph.D. Assistant Research Professor of Bioinformatics Department of Horticulture Washington State University

3 months, 2 weeks

FW: [ICGI] Nominations for ICGI co-chairs are now open

by Yu, Jing

From: cotton(a)zju.edu.cn <cotton(a)zju.edu.cn> Sent: Wednesday, January 13, 2021 5:31 PM To: icgi-list(a)cottongen.org Subject: [ICGI] Nominations for ICGI co-chairs are now open Dear ICGI members, Per our bylaws, nominations for ICGI co-chairs are now open, closing 1 February. We will elect co-chairs of each workgroup (Structural Genomics, Functional Genomics, Comparative Genomics and Bioinformatics, Germplasm and genetic stocks, and Breeding and applied Genomics) and the co-chair of ICGI overall, with the current co-chairs ascending to the Chair positions. Please send your nominations to me (cotton(a)zju.edu.cn<mailto:cotton@zju.edu.cn>), including the email address of the person(s) you wish to nominate and the office (s) that you wish to nominate them for. It would be appreciated if you would check with the prospective nominee first to make sure that s/he is willing to serve, although I will check with them as well. Pending any unexpected delays, nominations will CLOSE on 1 February, the election will open shortly thereafter (I will provide a link to it then), and the election will CLOSE on 1 March. Thank you in advance. Tianzhen Zhang, Chair, ICGI ________________________________ Dr.Tianzhen Zhang Distinguished Professor College of Agriculture and Biotechnology, Zhejiang University Hanzhou 310058, Zhejiang Province, China Tel./Fax: +86 571 88982971 E.mail: cotton(a)zju.edu.cn<mailto:cotton@zju.edu.cn>

10 months, 3 weeks

Invitation: CottonGen in the NRSP10 training workshop at PAG

by Main, Doreen

Hi Folks, Please join us for the NRSP10 workshop at PAG which covers many aspects of using the database resources we develop that are implemented in CottonGen. The NRSP10 project is up for renewal and significantly funds work on CottonGen. Workshop: Database Resources for Crop Genomics, Genetics and Breeding: NRSP10 When: Sunday January 13, 1.30 – 3.40 PM Where: Meeting Room Presentations 1.30: Overview of NRSP10 - Achievements and Future Plan (Dorrie Main) 1.45: Using the Online GenSAS Platform for Community Genome Annotation (Jodi Humman) 2.00: Tripal v3, the Collaborative Online Database Platform for Genomic, Genetic and Breeding Databases 2.15: Using NRSP10 Data and Tools for Basic Research (Sook Jung) 2.30: Using NRSP10 Data and Tools for Translational Research (Cameron Peace) 2.45: Using NRSP10 Data and Tools for Breeding (Ksenija Gasic) 3.00: Global Performance Prediction Tool in Tripal BIMS (Craig Hardiner) 3.15: Open Discussion of NRSP10 Overview NRSP10 is a USDA NIFA, industry and US Land Grant Universities funded project which provides standardized database and informatic resources for undeserved or specialty crops such as tree fruit, nuts, cotton and berries. It builds on existing database resources developed for Rosaceae (Genome Database for Rosaceae, www.rosaceae.org), Citrus (Citrus Genome Database, www.citrusgenomedb.org), Vaccinium (Genome Database for Vaccinium, www.vaccinium.org), Cool Season Food Legumes (Cool Season Food Legume Genome Database, www.csfl.org) and Cotton (CottonGen, www.cottongen.org). Developed using Tripal, an open-source, resource-efficient, modular, well supported software platform, these community databases provide centralized access to integrated genomic, genetic and breeding data and analysis tools for 24 crops representing a combined annual production value of over $25B. In this training workshop, we present progress in NRSP10 through a series of presentations by users and discuss the next 5 year plan for this project. Cheers Dorrie 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/>

2 years, 10 months

CottonGen Newsletter

by Main, Doreen

Hi Folks, Please find attached the first biannual newsletter reporting new data and functionality in CottonGen. If you have any questions or feedback please send them through the contact link on the CottonGen website. Best regards The CottonGen Team Dorrie Main, PhD Associate 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/>

5 years, 7 months

Request for cotton germplasm

by Yu, Jing

Tahir Mehmood sent a message using the contact form at https://www.cottongen.org/contact I'm a student of PMAS Arid agriculture University Rawalpindi, Pakistan. I'm working on drought tolerant cotton for pothohar region and non irrigated areas as well. I need cotton germplasm for my research so pleas guide me that how i shall get cotton germplam from your forum of research?

6 years, 3 months

requesting seed of cotton var. deltapine 61

by Yu, Jing

Dear Colleagues, If you happen to know any information that helps R. JAGADEESWARAN (described in his email at below), please contact him at iari.nema(a)gmail.com Thank you. The cottongen team ________________________________________ From: cottongen-admin(a)cottongen.org [cottongen-admin(a)cottongen.org] on behalf of iari.nema(a)gmail.com [iari.nema(a)gmail.com] Sent: Thursday, August 07, 2014 3:56 AM To: Cheng, Chun-Huai; Main, Doreen; Yu, Jing Subject: [Research Questions] requesting seed of cotton var. deltapine 61 R. JAGADEESWARAN sent a message using the contact form at http://www.cottongen.org/contact. respected sir/ madam i am working as nematologist involved in development of resistant source in pulse crops against root knot nematode in Indian institute of pulses research, kanpur, india. deltapine 61 is an important variety of cotton recommended to be used as differential host to identify host races in root knot nematode, meloidogyne spp. i humbly request you to guide me how can i get the seed of deltapine 61. sir/madam, i am assuring you this is only for reearch purpose. thanks

7 years, 3 months

Post-Doctoral Research Associate Position at USDA-ARS, Stoneville MS, USA

by Yu, Jing

Job Description: The Crop Genetics Research Unit in Stoneville, Mississippi seeks a Research Plant Molecular Biologist/Geneticist for a three-year post-doctoral appointment. The incumbent will join a multidisciplinary team conducting research to develop improved upland cotton germplasm with reniform nematode resistance. The incumbent will conduct molecular genetic investigations aimed at dissecting the genetic control of reniform nematode resistance in cotton. The assignment is to use molecular, genomic or genetic approaches to: 1) study expression, regulation and function of genes associated with reniform nematode resistance; 2) characterize spatial, temporal, and genotypic variation in gene expression and mechanisms leading to this variation; and 3) discover and validate DNA markers associated with resistance for marker-assisted selection to enhance the introgression of resistance into upland cotton. How to Apply: Send application materials to Dr. John Erpelding, USDA-ARS-CRGU, P.O. Box 345, Stoneville, MS 38776 or john.erpelding(a)ars.usda.gov. USDA-ARS is an equal opportunity provider and employer. Qualifications: The position requires a Ph.D. in plant molecular biology, plant genetics, plant physiology, plant biochemistry, plant pathology or related field. Knowledge of current methods used in plant molecular biology, including techniques used in DNA marker discovery and gene expression analysis are highly desirable. Knowledge or experience using statistical software for genomics-based analysis is needed. Although a US citizen is preferred, non-US citizens are welcome to apply. For more details about this position, please contact Dr. John Erpelding (Tel: 662 686 5220) or Dr. David Fang (david.fang(a)ars.usda.gov, Tel: 662 686 5401 or 504 655 0068).

7 years, 7 months

Postdoctoral Position, Cornell University, Ithaca NY, USA - immediately available

by Yu, Jing

A postdoctoral associate position in Quantitative Genetics and Genomics is immediately available in the Gore lab (http://plbrgen.cals.cornell.edu/people/michael-gore) in the Department of Plant Breeding and Genetics at Cornell University. This position is supported by a Cotton Incorporated Fellowship. The successful candidate will collaborate closely with a diverse team of scientists on an NSF funded project titled "A field-based high-throughput phenotyping platform for plant genetics." Specifically, the candidate will develop and apply statistical and computational approaches to identify quantitative trait loci controlling agronomic, fiber quality, and physiological traits in cotton. In addition, there will be opportunities for collaborative research on the development of novel high-throughput phenotyping approaches for cotton with USDA-ARS scientists located at the U.S. Arid-Land Agricultural Research Center in Maricopa, Arizona, and Kansas State University in Manhattan, Kansas (http://fieldphenomics.org/). How to Apply A letter of interest in the position, C.V., and contact information for three references should be emailed to Michael Gore at: mag87(a)cornell.edu Contact Michael Gore Associate Professor Department of Plant Breeding and Genetics Cornell University 310 Bradfield Hall Ithaca, NY 14853 E-mail: mag87(a)cornell.edu Vox: (607) 255-5492 Fax: (607) 255-6683 http://plbrgen.cals.cornell.edu/cals/pbg/people/faculty.cfm?netId=mag87 For more information please see http://www.cottongen.org/sites/default/files/cottongen_jobs/Post_Dr_Assoc-2…

7 years, 7 months

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