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United States Department of Agriculture

Agricultural Research Service

Research Project: Management of Temperate-Adapted Fruit, Nut, and Specialty Crop Genetic Resources and Associated Information

Location: National Clonal Germplasm Repository (Corvallis, Oregon)

Publications (Clicking on the reprint icon Reprint Icon will take you to the publication reprint.)

Where are we now as we merge genomics into plant breeding and what are our limitations? Experiences from RosBREED - (Proceedings)
Iezzoni, A., Peace, C., Bassil, N.V., Coe, M., Fazio, G., Gallardo, K., Gasic, K., Luby, J., Mcferson, J., Van De Weg, E.W., Weebadde, C. 2016. Where are we now as we merge genomics into plant breeding and what are our limitations? Experiences from RosBREED. Acta Horticulturae. 1117. doi: 10.17660/ActaHortic.2016.1117.1.
The genome of black raspberry (Rubus occidentalis) - (Peer Reviewed Journal)
(24-Apr-16)
Flowering Tendencies in Strawberry Species in the USDA Collection - (Peer Reviewed Journal)
Hummer, K.E., Oliphant, J.M., Bassil, N.V. 2016. Flowering Tendencies in Strawberry Species in the USDA Collection. International Journal of Fruit Science. doi.10.1080/15538362.2016.1195309.
A high density linkage map of the ancestral diploid strawberry F. iinumae using SNP markers from the ISTRAW90 array and GBS - (Peer Reviewed Journal)
Mahoney, L., Sargent, D., Wood, D., Ward, J., Bassil, N.V., Handcock, J., Folta, K., Davis, T. 2016. A high density linkage map of the ancestral diploid strawberry F. iinumae using SNP markers from the ISTRAW90 array and GBS. The Plant Genome. 9(2). doi: 10.3835/plantgenome2015.08.0071.
FaRXf1: a locus conferring resistance to angular leaf spot caused by Xanthomonas fragariae in octoploid strawberry - (Peer Reviewed Journal)
Roach, J., Verma, S., Peres, N., Jamieson, A., Van De Weg, E., Bink, M.C., Bassil, N.V., Lee, S., Whitaker, V. 2016. FaRXf1: a locus conferring resistance to angular leaf spot caused by Xanthomonas fragariae in octoploid strawberry. Theoretical and Applied Genetics. 129(6):1191-1201. doi: 10.1007/s00122-016-2695-1.
Germplasm Conservation and Access to Genetic Resources: National Plant Germplasm System and the National Clonal Germplasm Repository - (Proceedings)
Hummer, K.E. 2016. Germplasm Conservation and Access to Genetic Resources: National Plant Germplasm System and the National Clonal Germplasm Repository. Symposium Proceedings. Organic Seed Alliance,Port Townsend, WA, pp. 126-130.
Optimizing shoot culture media for Rubus germplasm: the effects of NH4+, NO3-, and total nitrogen - (Peer Reviewed Journal)
Poothong, S., Reed, B.M. 2016. Optimizing shoot culture media for Rubus germplasm: the effects of NH4+, NO3-, and total nitrogen. In Vitro Cellular and Developmental Biology - Plants. 52(3):265-275. doi: 10.1007/s11627-016-9750-0.
Screening genetically diverse pear species for in vitro CaCl2, MgSO4 and KH2PO4 requirements     Reprint Icon - (Peer Reviewed Journal)
Wada, S., Maki, S., Niedz, R.P., Reed, B.M. 2015. Screening genetically diverse pear species for in vitro CaCl2, MgSO4 and KH2PO4 requirements. Acta Physiologiae Plantarum. 37, 63 DOI 10.1007/s11738-014-1754-y.
Proceedings of the XI International Rubus and Ribes Symposium - (Book / Chapter)
Fernandez, G.E., Hummer, K.E., editors. 2016. Proceedings of the XI international Rubus and Ribes symposium. Acta Horticulturae. 526 p.
Determining optimum in vitro mineral nutrition for diverse pear germplasm using response surface methodology - (Peer Reviewed Journal)
Reed, B.M., De Noma, J.S., Wada, S., Niedz, R.P. 2016. Determining optimum in vitro mineral nutrition for diverse pear germplasm using response surface methodology. Acta Horticulturae. 1113:79-84.
Comparison of accessions from the UK and US national pear germplasm collections with a standardized set of microsatellite markers     Reprint Icon - (Peer Reviewed Journal)
Evans, K., Fernandez-Fernandez, F., Bassil, N.V., Nyberg, A.M., Postman, J.D. 2015. Comparison of accessions from the UK and US national pear germplasm collections with a standardized set of microsatellite markers. Acta Horticulturae. 1094:41-46.
Increased CaC12, MgS04 and KH2P04 improve the growth of micropropagated red raspberries - (Peer Reviewed Journal)
Poothong, S., Reed, B.M. 2015. Increased CaC12, MgS04 and KH2P04 improve the growth of micropropagated red raspberries. In Vitro Cellular and Developmental Biology - Plants. 51:648–658 DOI 10.1007/s11627-015-9720-y.
Rubus ploidy assessment - (Peer Reviewed Journal)
Hummer, K.E., Bassil, N.V., Alice, L. 2016. Rubus ploidy assessment. Acta Horticulturae. 1133:81-88. doi: 10.17660/ActaHortic.2016.1133.13.
Development of a Multiplexed Fingerprinting Set in Blackberry - (Peer Reviewed Journal)
(18-Jun-15)
Relationship between humanity and plant natural resources – in the context of food and agriculture - (Proceedings)
Hummer, K.E., Volk, G.M., Preece, J.E. 2016. Relationship between humanity and plant natural resources – in the context of food and agriculture. Foreign Agriculture Organization Proceedings. Humanity and Plant Genetic Resources: Fruits through the Ages. p. 274-308.
A genetic linkage map of black raspberry (Rubus occidentalis) and the mapping of Ag4 conferring resistance to the aphid Amphorophora agathonica     Reprint Icon - (Peer Reviewed Journal)
Bushakra, J., Bryant, D.W., Dossett, M., Vining, K.J., Vanburen, R., Gilmore, B.S., Lee, J., Mockler, T.C., Finn, C.E., Bassil, N.V. 2015. A genetic linkage map of black raspberry (Rubus occidentalis) and the mapping of Ag4 conferring resistance to the aphid Amphorophora agathonica. Theoretical and Applied Genetics. 128:1631-1646.
Ploidy of USDA (United States Department of Agriculture) world pear germplasm collection determined by flow cytometry     Reprint Icon - (Peer Reviewed Journal)
Postman, J.D., Bassil, N.V., Bell, R.L. 2015. Ploidy of USDA (United States Department of Agriculture) world pear germplasm collection determined by flow cytometry. Acta Horticulturae. 1094:75-81.
Practical aspects of running DOE for improving growth media for in vitro plants - (Abstract Only)
Reed, B.M., De Noma, J.S. 2015. Practical aspects of running DOE for improving growth media for in vitro plants. Society for In Vitro Biology Proceedings. Vol 51: S21-22.
Developing improved micropropagation medium for hazelnuts (Corylus avellana L.) based on ion concentrations - (Abstract Only)
Akin, M., Niedz, R.P., Reed, B.M. 2015. Developing improved micropropagation medium for hazelnuts (Corylus avellana L.) based on ion concentrations. In Vitro Biology Meeting. Vol 51: S60-61.
Developing black raspberry genetic and genomic resources - (Abstract Only)
Bushakra, J., Bryant, D., Dossett, M., Vining, K., Vanburen, R., Gilmore, B.S., Filichkin, S., Weiland, G.E., Peterson, M.E., Bradish, C.M., Fernandez, G., Lewers, K.S., Graham, J., Lee, J., Mockler, T., Bassil, N.V., Finn, C.E. 2015. Developing black raspberry genetic and genomic resources [abstract]. International Rubus and Ribes Symposium.
Development and transferability of black and red raspberry microsatellite markers from short-read sequences - (Peer Reviewed Journal)
Dossett, M., Bushakra, J., Gilmore, B.S., Koch, C., Kemplar, C., Finn, C.E., Bassil, N.V. 2015. Development and transferability of black and red raspberry microsatellite markers from short-read sequences. Journal of the American Society for Horticultural Science. 140(3):243–252.
The Discovery and Naming of the Cascade strawberry (Fragaria cascadensis)     Reprint Icon - (Popular Publication)
Hummer, K.E. 2015. The Discovery and Naming of the Cascade strawberry (Fragaria cascadensis). Kalmiopsis. 21:26-31.
An ultra-dense SNP linkage map for the octoploid, cultivated strawberry and its application in genetic research - (Abstract Only)
(25-Jan-15)
Determining nitrate and ammonium requirements for optimal in vitro response of diverse pear species - (Peer Reviewed Journal)
Wada, S., Niedz, R.P., Reed, B.M. 2015. Determining nitrate and ammonium requirements for optimal in vitro response of diverse pear species. In Vitro Cellular and Developmental Biology - Plants. 51(1):19-27.
Vavilovian centers of diversity: implications and impacts     Reprint Icon - (Peer Reviewed Journal)
Hummer, K.E., Hancock, J. 2015. Vavilovian centers of diversity: implications and impacts. HortScience. 50(6):780-783.
In the footsteps of Vavilov: plant diversity then and now     Reprint Icon - (Peer Reviewed Journal)
Hummer, K.E. 2015. In the footsteps of Vavilov: plant diversity then and now. HortScience. 50(6):784-788.
Development and preliminary evaluation of a 90K Axiom® SNP array for the allo-octoploid cultivated strawberry Fragaria ×ananassa - (Peer Reviewed Journal)
Bassil, N.V., Davis, T., Zhang, H., Ficklin, S., Mittman, M., Webster, T.A., Mahoney, L.L., Wood, D.J., Alperin, E.S., Rosyara, U., Koehorst-Van Putten, H., Monfort, A., Amaya, I., Denoyes, B., Sargent, D.J., Bianco, L., Van Dijk, T., Pirani, A., Iezzoni, A., Main, D., Peace, C., Yang, Y., Whitaker, V., Verma, S., Bellon, L., Brew, F., Herrera, R., Van De Weg, E.W. 2015. Development and preliminary evaluation of a 90K Axiom® SNP array for the allo-octoploid cultivated strawberry Fragaria ×ananassa. Biomed Central (BMC) Genomics. 16:155.
Conservation of citrus germplasm - an international survey - (Abstract Only)
Roos, M., Gmitter, F., Lee, R.F., Hummer, K.E. 2015. Conservation of citrus germplasm - an international survey. Acta Horticulturae. An International Survey. Acta Hort. 1101:33-38. doi 10.17660/ActaHortic.2015.1101.6.
Vaccinium species ploidy assessment - (Peer Reviewed Journal)
Hummer, K.E., Bassil, N.V., Rodriguez, A., Olmstead, J.W. 2016. Vaccinium species ploidy assessment. Acta Horticulturae. 1101:199-204. doi: 10.17660/ActaHortic.2015.1101.30.
Status of global strategies for horticultural fruit crops     Reprint Icon - (Peer Reviewed Journal)
Hummer, K.E., Dempewolf, H., Bramel, P., Markham, R., Stover, E.W. 2015. Status of global strategies for horticultural fruit crops. Acta Horticulturae. 1101:147-152. doi: 10.17660/ActaHortic.2015.1101.22.
Cryopreservation affects ROS-induced oxidative stress and antioxidant response in Arabidopsis seedlings - (Peer Reviewed Journal)
Chen, G., Ren, L., Zhang, J., Reed, B.M., Zhang, D., Shen, X. 2014. Cryopreservation affects ROS-induced oxidative stress and antioxidant response in Arabidopsis seedlings. Cryobiology. 70(1):38-47.
Modeling the effects of mineral nutrition for improving growth and development of micropropagated red raspberries - (Peer Reviewed Journal)
Poothong, S., Reed, B.M. 2013. Modeling the effects of mineral nutrition for improving growth and development of micropropagated red raspberries. Scientia Horticulturae. 165:132-141.
USDA Fragaria Crop Vulnerability Statement 2014     Reprint Icon - (Other)
Hummer, K.E. 2014. USDA Fragaria Crop Vulnerability Statement 2014. Germplasm Resources Information Network (GRIN). I:1-54.
Managing nut genetic resources under disease threat - (Peer Reviewed Journal)
Hummer, K.E., Postman, J.D., Preece, J.E. 2015. Managing nut genetic resources under disease threat. Acta Horticulturae. 1070:193-200.
Genetic diversity of medlar (Mespilus germanica) germplasm using microsatellite markers - (Peer Reviewed Journal)
Schaefer, K., Nyberg, A.M., Postman, J.D., Bassil, N.V. 2015. Genetic diversity of medlar (Mespilus germanica) germplasm using microsatellite markers. Acta Horticulturae. 1094:47-56.
Phylogeny and evolutionary histories of Pyrus L. revealed by phylogenetic trees and networks based on data from multiple DNA sequences - (Peer Reviewed Journal)
Zheng, X., Cai, D., Potter, D., Postman, J.D., Liu, J., Teng, Y. 2014. Phylogeny and evolutionary histories of Pyrus L. revealed by phylogenetic trees and networks based on data from multiple DNA sequences. Molecular Phylogenetics and Evolution. 80:54-65.
Sambucus genetic resources at the U.S.D.A. National Clonal Germplasm Repository, Corvallis, Oregon - (Peer Reviewed Journal)
Bushakra, J., Bassil, N.V., Finn, C.E., Hummer, K.E. 2015. Sambucus genetic resources at the USDA. National Clonal Germplasm Repository, Corvallis, Oregon. Acta Horticulture Proceedings. 1061:135-14.
Minor nutrients are critical for the improved growth of Corylus avellana shoot cultures - (Peer Reviewed Journal)
Hand, C., Reed, B.M. 2014. Minor nutrients are critical for the improved growth of Corylus avellana shoot cultures. Plant Cell Tissue And Organ Culture. 119:427-539. doi: 10.1007//s11240-014-0545-x.
Modeling optimal mineral nutrition for hazelnut micropropagation - (Peer Reviewed Journal)
Hand, C., Maki, S., Reed, B.M. 2014. Modeling optimal mineral nutrition for hazelnut micropropagation. Plant Cell Tissue and Organ Culture. 119:411-425. doi: 10.1007/s11240-014-0544-y.
Improving in vitro mineral nutrition for diverse germplasm - (Abstract Only)
Reed, B.M., Wada, S., Poothong, S., Hand, C., Kovalchuk, I., Niedz, R.P. 2014. Improving in vitro mineral nutrition for diverse germplasm. Abstract of International Horticultural Congress. p. 203.
Building the genomic infrastructure in black raspberry - (Abstract Only)
Bryant, D., Bushakra, J., Dossett, M., Vining, K., Filichkin, S., Weiland, G.E., Lee, J., Finn, C.E., Bassil, N.V., Mockler, T. 2014. Building the genomic infrastructure in black raspberry [abstract]. American Society for Horticultural Science Annual Conference.
Medium-term in vitro storage as a complementary germplasm preservation technique - (Abstract Only)
Reed, B.M. 2014. Medium-term in vitro storage as a complementary germplasm preservation technique. Abstract of International Horticultural Congress. 204.
List 47: blue honeysuckle - (Peer Reviewed Journal)
Hummer, K.E., Bors, R. 2014. List 47: blue honeysuckle. HortScience. 49(4):407-408.
List 47: currants - (Peer Reviewed Journal)
Hummer, K.E. 2014. List 47: currants. HortScience. 49(4):400-401.
Toward understanding genotype x environment interactions in black raspberry (Rubus occidentalis L.) - (Abstract Only)
Bushakra, J., Bradish, C.M., Weber, C.A., Scheerens, J., Dossett, M., Peterson, M.E., Fernandez, G., Lee, J., Bassil, N.V., Finn, C.E. 2014. Toward understanding genotype x environment interactions in black raspberry (Rubus occidentalis L.) [abstract]. American Society for Horticultural Science Annual Conference.
Black raspberry genetic and genomic resources development - (Abstract Only)
Bushakra, J., Bryant, D., Dossett, M., Gilmore, B.S., Filichkin, S., Weiland, G.E., Peterson, M.E., Bradish, C.M., Fernandez, G., Lewers, K.S., Graham, J., Lee, J., Mockler, T., Bassil, N.V., Finn, C.E. 2014. Black raspberry genetic and genomic resources development [abstract]. Annual Scientific Meeting of the American Society of Plant Biologists.
Effect of pretreatment methods of dormant pear buds on viability after cryopreservation - (Peer Reviewed Journal)
Zhumagulova, Z.B., Kovalchuk, I., Reed, B.M., Turdiev, T. 2014. Effect of pretreatment methods of dormant pear buds on viability after cryopreservation. World Applied Sciences Journal. 30(3):330-334. DOI: 10.5829/idosi.wasj.2014.30.03.14028.
Antioxidants and anti-stress compounds improve the survival of cryopreserved Arabidopsis seedlings - (Peer Reviewed Journal)
Ren, L., Zhang, D., Shen, X., Reed, B.M. 2014. Antioxidants and anti-stress compounds improve the survival of cryopreserved Arabidopsis seedlings. Acta Horticulturae. 1039:57-62.
Antioxidants and cryopreservation, the new normal? - (Peer Reviewed Journal)
Reed, B.M. 2014. Antioxidants and cryopreservation, the new normal?. Acta Horticulturae. 1039:41-48.
New technique for more rapid cryopreservation of dormant vegetative tree buds - (Peer Reviewed Journal)
Kovalchuk, I., Turdiev, T., Mukhitdinova, Z., Frolov, S., Kairova, G., Reed, B.M. 2014. New technique for more rapid cryopreservation of dormant vegetative tree buds. Acta Horticulturae. 1039:137-146.
Vaccinium species ploidy assessment - (Abstract Only)
(01-Jan-14)
Cryopreservation of native Kazakhstan apricot (Prunus armeniaca L) seeds and embryonic axes - (Peer Reviewed Journal)
Kovalchuk, I., Turdiev, T., Mukhitdinova, Z., Frovlow, S., Reed, B.M. 2014. Cryopreservation of native Kazakhstan apricot (Prunus armeniaca L) seeds and embryonic axes. CryoLetters. 35:85-89.
Luther Burbank's best berries - (Peer Reviewed Journal)
Hummer, K.E., Dossett, M., Finn, C.E. 2015. Luther Burbank's best berries. HortScience. 50(2):205-210.
Melatonin enhances the recovery of cryopreserved shoot tips of American elm (Ulmus Americana L.) - (Peer Reviewed Journal)
Uchendu, E.E., Shukla, M.R., Reed, B.M., Saxena, P.K. 2013. Melatonin enhances the recovery of cryopreserved shoot tips of American elm (Ulmus Americana L.). Journal of Pineal Research. 55:435-442. DOI:10.1111/jpi.12094.
Antioxidants and cryopreservation, the new normal? - (Abstract Only)
Reed, B.M. 2013. Antioxidants and cryopreservation, the new normal? [Abstract] Acta Horticulturae. Pg. 18.
Improving cryopreservation potential with antioxidant treatments - (Abstract Only)
Reed, B.M. 2013. Improving cryopreservation potential with antioxidant treatments. [Abstract] Cryobiology. Pg. 53.
Cryopreservation of dormant vegetative buds of tart and sweet cherry in liquid nitrogen - (Abstract Only)
Kovalchuk, I., Turdiev, T., Frovlow, S., Madiyeva, G., Reed, B.M. 2013. Cryopreservation of dormant vegetative buds of tart and sweet cherry in liquid nitrogen. International Society of Horticultural Science Proceedings. Pg. 101.
Luther Burbank's berries - (Abstract Only)
Hummer, K.E., Finn, C.E., Dossett, M. 2013. Luther Burbank's berries. HortScience. Available: http://ashs.confex.com/ashs/2013/webprogram/Paper15229.html.
OHxF paternity problem perplexes pear producers - (Peer Reviewed Journal)
Postman, J.D., Bassil, N.V., Kim, D. 2013. OHxF paternity problem perplexes pear producers. Journal of American Pomological Society. 67(3):157-167.
Fingerprints for fruit and nut crops - (Popular Publication)
Hummer, K.E., Bassil, N.V. 2013. Fingerprints for fruit and nut crops. Chronica Horticulturae. 53(2):3-6.
Sambucus genetic resources at the U.S. National Clonal Germplasm Repository [Abstract] - (Abstract Only)
Bushakra, J., Bassil, N.V., Finn, C.E., Hummer, K.E. 2013. Sambucus genetic resources at the U.S. National Clonal Germplasm Repository [Abstract]. Symposium Proceedings. 1061:135-145.
Developing a genotyping by sequencing protocol for linkage map construction in black raspberry - (Abstract Only)
(15-Mar-13)
Last Modified: 8/26/2016
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