Source: SOUTH DAKOTA STATE UNIVERSITY submitted to NRP
APPLIED CROP GENOMICS AND GENETICS
Sponsoring Institution
National Institute of Food and Agriculture
Project Status
COMPLETE
Funding Source
HATCH
Reporting Frequency
Annual
Accession No.
0219768
Grant No.
(N/A)
Cumulative Award Amt.
(N/A)
Proposal No.
(N/A)
Multistate No.
(N/A)
Project Start Date
May 1, 2009
Project End Date
Sep 30, 2014
Grant Year
(N/A)
Program Code
[(N/A)]- (N/A)
Recipient Organization
SOUTH DAKOTA STATE UNIVERSITY
PO BOX 2275A
BROOKINGS,SD 57007
Performing Department
Plant Science
Non Technical Summary
This project will facilitate the link between basic and applied research. The project will focus primarily in the generation and application of genetic and genomic research in wheat (as a food crop of economic importance in SD) and grasses with potential use as bionergy crops is SD. An example of this last category is prairie cordgrass. Additionally new germplasm will be likely generated, this germplasm will be made available to the appropriate breeding program.
Animal Health Component
(N/A)
Research Effort Categories
Basic
(N/A)
Applied
(N/A)
Developmental
(N/A)
Classification

Knowledge Area (KA)Subject of Investigation (SOI)Field of Science (FOS)Percent
2011620104015%
2011540108010%
2011541108010%
2011620108035%
2021620108110%
2011540108110%
2011541108110%
Knowledge Area
202 - Plant Genetic Resources; 201 - Plant Genome, Genetics, and Genetic Mechanisms;

Subject Of Investigation
1540 - Hard red winter wheat; 1620 - Warm season perennial grasses; 1541 - Hard red spring wheat;

Field Of Science
1040 - Molecular biology; 1081 - Breeding; 1080 - Genetics;
Goals / Objectives
The Goal of this project is to develop and apply genomic and molecular genetic tools for the development of new varieties of South Dakota crops as well as potential new crops. Some examples of species of interests are wheat (as an important food crop in South Dakota) and prairie cordgrass (as a potential new bioenergy crop for the state). Objectives 1. Development of genomic and genetic information of crops of interest 2. Development of novel protocols, techniques and approaches to apply genomic information in crop improvement 3. Development and molecular characterization of novel germplasm for crops of interest for South Dakota Outputs 1. Publications in peer-reviewed journals 2. Presentations at scientific meetings 3. Presentations to stake holders and general public 4. Germplasm
Project Methods
In general the methods will be similar to both species (wheat and cordgrass). In addition both species are grasses, so we may be able to use information across species. The main difference is the level of knowledge already exits in each species. Other significant differences are the pollination (self pollination in wheat versus open pollination in cordgrass), and the ploidy level (wheat is an allohexaploid especies with diploid behaviour, and cordgrass is described as an autotetraploid). Objective 1. Cordgrass i. The development of molecular markers, such as SSRs, using both genomic and cDNA sequences ii. The characterization of the transcriptome of this species using next generation sequencing methods iii. The sequencing of particular genes based on their homeology with related grass species such us sorghum, maize, rice, wheat, and lolium Wheat i. My lab will use different types of populations segregating for the traits of interest, such us disease and insect resistance, and quality traits. Populations' types will include RILs and combinations of early generation material derived from multiple (up to 100) crosses involving the same donor parent. For the latest type of populations we will use the pedigree family-based QTL mapping approach we recently described in Rosyara et al, 2009 (TAG 118:1617-1631). Collaborations are already in place with both wheat-breeding programs at SDSU (Dr Glover and Dr Berzonsky) as well as with the small grains pathologist (Dr Stein). Objective2. Cordgrass i. My lab will work towards the development of molecular markers and their applications in breeding programs; from marker assisted selection to association mapping and genetic diversity. Some approaches may include the family-based mapping as well as genome wide selections strategies. Collaborations are in aplce with Dr Boe's group. ii. Tissue culture. I anticipate my lab will work towards the development of tissue culture protocols for cordgrass. These protocols will be useful in both basic studies as well as potentially in the development of new cultivars. Wheat i. My lab will continue working in the expansion of the applications of family-based pedigree mapping to breeding programs. Objective 3 Cordgrass i. My lab has initiated the development of a germplasm collection in collaboration with Dr Boe, Dr Owens and Dr Stein. We will continue with the evaluations of this and new germplasm. This germplasm is already available to Dr. Boe breeding program. Selected genotypes will be considered for public release. Wheat i. Germplasm originated from the family-based mapping approach is made available to the breeding programs as is being generated.

Progress 05/01/09 to 09/30/14

Outputs
Target Audience: The target audience of this project was the scientific community in the area of plant genetics and genomics; in particular wheat breeders and scietists working on perennial grasses. Changes/Problems: Nothing Reported What opportunities for training and professional development has the project provided? In the reporting period two graduate students succesfully graduated. Additionally 8 other graduate students continued their training and research. They got trained in areas from general lab techniques to bioinfomatics analysis of RNAseq data. Additionally the lab participated in a NSF funded REU site (Dr. Gonzalez is Co Director of the site), this provided training opportunities from 10 undergraduates recruited nationally; two of this students worked directly under Dr. Gonzalez supervision and got trained in diverse technisues from plant growth evaluation to bioinfomatics. How have the results been disseminated to communities of interest? We used peer reviwed publications, presentations in conferences and invited presentations in other venues such as guest seminars in other institutions. What do you plan to do during the next reporting period to accomplish the goals? Nothing Reported

Impacts
What was accomplished under these goals? UnderObjective 1. Development of genomic and genetic information of crops of interest we acoomplished the following: a) mapped the Sr8a sten rust resistance gene in wheat. The gene was hypothesized to be present on chromosome 6A several decades ago; we were able to place SNP markers less than 2 cM form the gene. The significance of this relates to the fact that this gene provides rsistance to the newest and very virulent stem rust race TRTTF found in Ethiopia. In addition the resiatnce line we used is a elite hard red spring wheat line. b) we mapped several furarium reistance QTLs in spring wheat and winter wheat germplasms. c) we finshed a study into the function of the Sm1 gene proving resistnce to the orange wheat blossom midge using a pari fo resistant and suceptible sister wheat lines. c) we mapped resistance QTLs to bacterial blight in hard red spring elite germplasm.Under objective2. Development of novel protocols, techniques and approaches to apply genomic information in crop improvement we accomplished te following: a) we developed a novel apprach to develop dense linkage maps in plants using multipoint linakge analysis of general pedigrees. This apporach allows for development of linkage maps without the need to develop large biparental populations, but rather from a collection of small populations (biparental or derived from multiple parents), for example breeding populations.Under objective 3 we accomplished the following: a) we developed ~1300 wheat breeding lines (spring and winter) with mutiple fusarium resisatnce QTLs pyrimided on them. These lines have been phenotyped and genotyped. These lines have been distributed to regional breeding programs.

Publications

  • Type: Journal Articles Status: Published Year Published: 2014 Citation: J.T. Eckard, J.L. Gonzalez-Hernandez*, S. Chao, P. St Amand, G. Bai. 2014. Construction of dense linkage maps "on the fly" using early generation wheat breeding populations. Molecular Breeding 34:1281-1300
  • Type: Journal Articles Status: Published Year Published: 2014 Citation: Yuba R. Kandel, Karl D. Glover, Lawrence E. Osborne and Jose L. Gonzalez-Hernandez. 2014. Mapping quantitative resistance loci for bacterial leaf streak disease in hard red spring wheat using an identity by descent mapping approach. Euphytica 201:53-65
  • Type: Journal Articles Status: Published Year Published: 2015 Citation: 23. Rosa Guerrero-Chavez, Karl D. Glover, Matthew N. Rouse and Jose L. Gonzalez-Hernandez*. Mapping of Two Loci Conferring Resistance to Wheat Stem Rust Pathogen Races TTKSK (Ug99) and TRTTF in the Elite Hard Red Spring Wheat Line SD4279. 2015. Accepted in Molecular Breeding. DOI: 10.1007/s11032-015-0198-4
  • Type: Journal Articles Status: Published Year Published: 2015 Citation: 22. Eckard JT, Gonzalez-Hernandez JL*, Caffe M, Berzonsky, W, Bockus WW, Marais GF, Baenziger PS. 2015. Native Fusarium head blight resistance from winter wheat cultivars Lyman, Overland, Ernie, and Freedom mapped and pyramided onto Wesley-Fhb1 backgrounds. Accepted in Molecular Breeding. DOI: 10.1007/s11032-015-0200-1
  • Type: Conference Papers and Presentations Status: Published Year Published: 2014 Citation: O. P�rez-Tornero, F. C�rdoba and J. L. Gonz�lez-Hern�ndez. A highly efficient plant regeneration system through multiple shoot differentiation of cordgrass (Spartina pectinata) using basal meristems from germinated mature seeds. ICI-Spartina. Rennes, France. July7-10, 2014
  • Type: Conference Papers and Presentations Status: Published Year Published: 2014 Citation: Kamrowski, Yaqoob Thurston, Jose L. Gonzalez-Hernandez, Heike B�cking. The colonization with arbuscular mycorrhizal fungi affects wheat biomass differently among cultivars. Edgar S. McFadden Symposium. September 23-24, 2014. Brookings, SD
  • Type: Conference Papers and Presentations Status: Published Year Published: 2014 Citation: Yaqoob Thurston, Nina Kamrowski, Heike B�cking, Jose L. Gonzalez-Hernandez. Response of wheat to natural communities of arbuscular mycorrhizal fungi. Edgar S. McFadden Symposium. September 23-24, 2014. Brookings, SD
  • Type: Conference Papers and Presentations Status: Published Year Published: 2014 Citation: Yaqoob Thurston, Jose L. Gonzalez-Hernandez, Jonathan T. Eckard, Karl D. Glover, Mohamed Mergoum, and James A. Anderson. Validation of Fusarium head blight resistance QTLs in wheat using double-haploids derived from four-way crosses Edgar S. McFadden Symposium. September 23-24, 2014. Brookings, SD.
  • Type: Conference Papers and Presentations Status: Published Year Published: 2013 Citation: J.T. Eckard, J.L. Gonzalez-Hernandez, S. Chao, P. St. Amand and G. Bai Construction Of Dense Linkage Maps On The Fly Using Early Generation Plant Breeding Populations To Facilitate Mapping Of Fusarium Head Blight Resistance QTL. In: S. Canty, A. Clark, Y. Salat and D. Van Sanford (Eds.), Proceedings of the 2013 National Fusarium Head Blight Forum (pp. 15). East Lansing, MI/Lexington, KY: U.S. Wheat & Barley Scab Initiative.
  • Type: Conference Papers and Presentations Status: Published Year Published: 2013 Citation: J.T. Eckard, J.L. Gonzalez-Hernandez, K.D. Glover, J. Anderson And M. Mergoum Multiple Fusarium Head Blight Resistance QTL Pyramided Onto Elite Spring Wheat Fhb1 Backgrounds Using A Family-Based Mapping Approach. In: S. Canty, A. Clark, Y. Salat and D. Van Sanford (Eds.), Proceedings of the 2013 National Fusarium Head Blight Forum (pp. 16). East Lansing, MI/Lexington, KY: U.S. Wheat & Barley Scab Initiative.
  • Type: Conference Papers and Presentations Status: Published Year Published: 2013 Citation: J.T. Eckard, J.L. Gonzalez-Hernandez, W.A. Berzonsky, W. Bockus And G.F. Marais Native Fusarium Head Blight Resistance From Lyman, Overland, Ernie And Freedom Wheat Cultivars Pyramided Onto Wesley-Fhb1 Backgrounds Using A Family-Based Mapping Approach. In: S. Canty, A. Clark, Y. Salat and D. Van Sanford (Eds.), Proceedings of the 2013 National Fusarium Head Blight Forum (pp. 17). East Lansing, MI/Lexington, KY: U.S. Wheat & Barley Scab Initiative.
  • Type: Theses/Dissertations Status: Published Year Published: 2014 Citation: JT Eckard. 2014. Simultaneous mapping and pyramiding of fusarium head blight resistance loci in wheat breeding populations. PhD Thesis. South Dakota State University. Brookings, SD
  • Type: Theses/Dissertations Status: Published Year Published: 2013 Citation: B. Monier. 2014.The analysis of cytotoxic variation and construction of BAC library of midwestern prairie cordgrass genotypes. MSc Thesis. South Dakota State University
  • Type: Conference Papers and Presentations Status: Published Year Published: 2014 Citation: J. Gonzalez-Hernandez. Characterization of the transcriptome and genome of Spartina pectinata. ICI-Spartina. Rennes, France. July 7-10, 2014
  • Type: Conference Papers and Presentations Status: Published Year Published: 2014 Citation: J. Gonzalez-Hernandez. Prairie Cordgrass Genomics. University of South Dakota. Vermillion, SD. April 2014.
  • Type: Conference Papers and Presentations Status: Published Year Published: 2014 Citation: Guerrero-Chavez, Rosa, Karl D. Glover, Matthew N. Rouse, and Jose L. Gonzalez-Hernandez. 2014. Mapping of Resistance to Stem Rust Races Ug99 and TRTTF in Hard Red Spring Wheat. Edgar S. McFadden Symposium. September 23-24, 2014. Brookings, SD.


Progress 01/01/13 to 09/30/13

Outputs
Target Audience: Scientific community working and related research such wheat breeding and genetics, biomass crops and plant genetics and genomics Changes/Problems: Nothing Reported What opportunities for training and professional development has the project provided? There are several students working under this project.THese astudents have sttended graduate courses and informal dicussion with the PD and other faculty How have the results been disseminated to communities of interest? Thru publications, presentations and informal conversation with interested parties What do you plan to do during the next reporting period to accomplish the goals? Continue the research project in progress

Impacts
What was accomplished under these goals? Under objective 1. A new and improved verstion of the transcriptome of pririe cordgrass was completed based on >1.2 billion Illumina reads from 3 vegative tissues. This allows us to develop a tissue specific atlas for roots, leaves and rhyzome. We completed the Fusarium Head Blight QTL analysis for a spring wheat complex population combining multilpe resistance sources. Using this approach we validated some novel QTLs for FHB resistance. We also combined multiple QTLs on a single background. Our data shows that the combination of these QTLs have an additive effect improving FHB resistance as we combine more QTLs. Under objective 3. We developed over 750 early generation lines that were transferred to hard red spring wheat breeding programs in the region (SD, ND and MN). These lines, derived from approaximately 30 4-way crosses, are segregating for multiple FHB resistance QTLs and are ideal for selection in different breeding programs. A similar number of lines were developed in winter wheat backgrounds and shared with winter wheat breeding programs in SD, NE, ND and KS.

Publications

  • Type: Book Chapters Status: Published Year Published: 2013 Citation: " Boe, A., T. Springer, D.K.Lee, A.L. Rayburn, and J. Gonzalez-Hernandez. 2013. Underutilized grasses. pg. 173-206 In M.C. Saha, H.S. Bhandari, and J.H. Bouton (ed.) Bioenergy Feedstocks: Breeding and Genetics. John Wiley & Sons, Inc.
  • Type: Journal Articles Status: Published Year Published: 2013 Citation: "Arvid Boe, Vance Owens, Jose Gonzalez-Hernandez and D. K. Lee. 2013. Seed Set in Prairie Cordgrass. Crop Science 53:403-410


Progress 01/01/12 to 12/31/12

Outputs
OUTPUTS: The Goal of this project is to develop and apply genomic and molecular genetic tools for the development of new varieties of South Dakota crops as well as potential new crops. Some examples of species of interests are wheat (as an important food crop in South Dakota) and prairie cordgrass (as a potential new bioenergy crop for the state). Objectives 1. Development of genomic and genetic information of crops of interest 2. Development of novel protocols, techniques and approaches to apply genomic information in crop improvement 3. Development and molecular characterization of novel germplasm for crops of interest for South Dakota Outputs 1. Publications in peer-reviewed journals 2. Presentations at scientific meetings 3. Presentations to stake holders and general public 4. Germplasm To increase the dissemination to the general public in general we organized the 2nd Annual Wheat Education Day was conducted. This event was open to the public with the goal to educate the public on wheat and wheat research. Germplasm; Approximately 750 and 445 lines segregating for multiple QTLs for FHB resistance were passed to the Spring Wheat and the Winter Wheat Breeding programs. Approximately 70 SSR markers for prairie cordgrass were released to the public. PARTICIPANTS: Participants: Jose L. Gonzalez, Dong He, Kristene Gedye, Brandon Monier, Aditi Kondhia, Jonathan Tyler Edckard, Padmapriya Swaminathan, Youssef Yarachi Collaborators: Arvid Boe, Vance Owens, Neil Reese, Senthil Subramanian, Anne Fennell, Karl Glover, W. Berzonsky, S. Ali, Heike Bucking(South Dakota State University). V. Kalavacharla (Delaware State University). DK Lee, A Lane Rayburn (University of IL). Marion Harris, Marinus Otte, Donna Yacob, Achintya Bezbaruah, Mohamed Mergoum (North Dakota State University). J. Anderson (University of MN). W . Bockus (Kansas State University) S. Chao, M. Rouse (USDA-ARS) TARGET AUDIENCES: The target audience of this project includes scientists working on wheat breeding and genetics, perennial grasses and different aspects of the bioenergy industry. Also includes producers interested in potential crops and new developments in the bioenergy industry. PROJECT MODIFICATIONS: Nothing significant to report during this reporting period.

Impacts
In 2012 the laboratory hosted two undergradute researchers during the summer months. These two undergrates were trained in field and laboratory techniques while studying the adaptation mechanism of prairie cordgrass to saline soils.Additionally 5 graduate students continued their graduate program in the laboratory; a new graduate student started her program during 2012. Four other graduate students have received training in molecular genetic techniques. During 2012 we concluded a study on crown rust in oats (in collaboration with a research group in Brazil). We investigated the mechanisms of resistance using RNA sequencing technologies. We have conducted a similar investigation in the wheat and orange midge system, and to investigate the cold tolerance mechanisms in prarie cordgrass (in collaboration with Dr. DK Lee at University of IL).

Publications

  • Arvid Boe, Vance Owens, Jose Gonzalez-Hernandez and D. K. Lee. 2013. Seed Set in Prairie Cordgrass. Crop Science 53:403-410 (available online as October 2012)
  • K. R. Gedye, J. L. Gonzalez-Hernandez, V. Owens, and A. Boe (2012) Advances towards a Marker-Assisted Selection Breeding Program in Prairie Cordgrass, a Biomass Crop. International Journal of Plant Genomics. Volume 2012 (2012), Article ID 313545.( doi:10.1155/2012/313545.online: http://www.hindawi.com/journals/ijpg/)
  • H. Bucking, P. Jampani and J. Gonzalez. 2012. Arbustal Mycorrhizal Associations and Their Significance for Wheat Production. in "iGrow Wheat. Best Management Practices for Wheat Production" D. Clay, C. G. Carlson and K. Dalsted (Eds). Published by South Dakota State University. College of Agriculture and Biological Sciences, Box 2208, Brookings, SD 57007.
  • J.T. Eckard, J.L. Gonzalez-Hernandez, K.D. Glover and W.A. Berzonsky. 2012. Mapping and pyramiding scab resistance qtl in early generation spring and winter wheat breeding populations using family-based mapping approach. In: S. Canty, A. Clark, A. Anderson-Scully and D. Van Sanford (Eds.), Proceedings of the 2012 National Fusarium Head Blight Forum (pp. 58). East Lansing, MI/Lexington, KY:U.S. Wheat & Barley Scab Inititiative.
  • J.T. Eckard, J.L. Gonzalez-Hernandez, K.D. Glover, W.A. Berzonsky, JA Anderson and M Mergoum. 2012. Generalized linear models for genetic prediction of scab resistance from regional disease nurseries. In: S. Canty, A. Clark, A. Anderson-Scully and D. Van Sanford (Eds.), Proceedings of the 2012 National Fusarium Head Blight Forum (pp. 57). East Lansing, MI/Lexington, KY:U.S. Wheat & Barley Scab Inititiative.
  • S.Ali, M. Eldakak, P. Gautam, K. Glover, J.S. Rohila, J. Gonzalez and W. Berzonsky. 2012. Gibberrella zeae Che-motypes Diversity on Moderately FHB Resistant Wheat Genotypes in South Dakota. In: S. Canty, A. Clark, A. Anderson-Scully and D. Van Sanford (Eds.), Proceedings of the 2012 National Fusarium Head Blight Forum (pp. 115-117). East Lansing, MI/Lexington, KY:U.S. Wheat & Barley Scab Initiative.


Progress 01/01/10 to 12/31/10

Outputs
OUTPUTS: During 2010 we conducted and analyzed experiments to develop genomic and genetic information, develop novel approches and techniques, and to develop and characterize for crops of interest to SD. We focused in two species, wheat and prairie cordgrass (a novel biomass crop). In wheat the work focused on biotic stresses and included mapping of molecular markers in different populations and lines, phenotyping those materials and making crosses to develop new genetic diversity. In prairie cordgrass work focused on developing genetic and genomic information for this novel species, including evaluation of a germplasm collection assembled in previous years, developing and running SSR markers in different materials, developing a survey of the transcriptome including identification of interesting candidate genes, and development of in vitro tissue culture techniques. Dissemination activities included participation in scientific meetings (Plant and Animal Genome, USWB Fusarium Headblight Forum), presentations in other universities, participation in general public events such as the SD State Fair and informal talks with commodities representatives. PARTICIPANTS: Participants: Jose L. Gonzalez, Kristene Gedye, Umesh Rosyara, Samuel Dwire, Irene Perea, Brandon Monier, Aditi Kondhia, Jonathan Tyler Edckard, Collaborators: (South Dakota State University) Arvid Boe, Vance Owens, Neil Reese, Senthil Subramanian, Anne Fennell, Karl Glover, W. Berzonsky, J. Stein, Heike Bucking (Delaware State University): V. Kalavacharla (U. Of Nebraska) TARGET AUDIENCES: The target audience of this project includes scientists working on wheat breeding and genetics, perennial grasses and different aspects of the bioenergy industry. Also includes producers interested in potential crops and new developments in the bioenergy industry. PROJECT MODIFICATIONS: Nothing significant to report during this reporting period.

Impacts
The project has successfully graduated two graduate students in 2010, one PhD and one MSc. During 2010 the project continued to work in further development of the Family Based QTL mapping approach in plant species, more specifically using wheat to demonstrate the application in plant breeding/genetics programs. After successfully demonstrating its applicability in 2009 (See Theoretical and Applied Genetics 2009. 118:1617-1631) we have mapped two sources of resistance to fusarium head blight in wheat. One is an elite line from the HRSW breeding programs at SDSU, and the second is the plant introduction Mult757. This yielded a putative novel resistance QTL on chromosome 7B. We are working on a manuscript to publish these findings. Additionally we have developed computer simulations to optimize the power of the method by adjusting different parameters such family number, progeny number, and marker density for QTLs of different phenotypic effects. A manuscript is being edited for publication. In prairie cordgrass the project has published the first transcriptome analysis for this species. For this we used next generation sequencing technology. In addition to valuable sequence information this allows us to determine that sorghum is most likely the most similar of those grass species with completely sequence genome. We have also completed a germplasm collection consisting of 100 clones collected in the central plains. Clones are being evaluated for different traits. We have developed a the first protocol for intro regeneration of prairie cordgrass from calli. This is the first required step for transgenic technologies in this species.

Publications

  • Umesh Rosyara, Jose L. Gonzalez-Hernandez, Kristene Gedye, Jeff Stein and Karl Glover. MAPPING WHEAT HEAD SCAB RESISTANCE QTL IN MULT757 USING FAMILY-BASED LINKAGE AND ASSOCIATION APPROACH.In: S. Canty, A.Clark, A. Anderson-Scully, D. Ellis and D. Van Sanford (Eds.), Proceedings of the National Fusarium Head BlightForum; 2010 Dec 7-9; Milwaukee, WI. Lexington, KY: University of Kentucky.
  • J. L. Gonzalez-Hernandez, G. Sarath, J.M. Stein, V. Owens, K. Gedye and A. Boe. 2010. A multiple species approach to biomass production from native herbaceous perennial feedstocks. In Biofuels, Global Impact on renewable energy, production agriculture, and technological advancements. D. Tomes et al. (eds.)
  • Kristene Gedye, Jose Gonzalez-Hernandez, Yuguang Ban, Xijin Ge, Jyothi Thimmapuram, Fengjie Sun, Shahjahan Ali, Arvid Boe and Vance Owens. 2010. Investigation of the Transcriptome of Prairie Cord Grass (Spartina pectinata) a New Cellulosic Biomass Crop. The Plant Genome 3:69-80


Progress 01/01/09 to 12/31/09

Outputs
OUTPUTS: Results have been disseminated by publications in scientific forums, and popular press releases. PARTICIPANTS: Collaborators: Arvid Boe, Vance Owens, Karl Glover, W. Berzonsky, Anne Fennell, S. Subramanian, Neil Reese, DK Lee, Brent Turnipseed Others: Kristene Gedye (Research Associate), Brandon Monier, (MSc Student), Umesh Rosyara (PhD Student), David KArki (PhD Student), Sam Dwire (MSc student), Neerja Tyagi (postdoc) TARGET AUDIENCES: Other scientists, general public PROJECT MODIFICATIONS: Nothing significant to report during this reporting period.

Impacts
Objective 1. Development of genomic and genetic information of crops of interest. We have completed the first transcriptome characterization for prairie cordgrass (Spartina pectinata). In wheat we have mapped resistance genes to fusarium head blight (FHB) in SD3934 (a SD spring wheat elite line) and the intial genotyping work in Mult757 (an unadapted germplasm)is completed. Objective 2. Development of novel protocols, techniques and approaches to apply genomic information in crop improvement. We have finalized a simulation to allocate resources in a family based pedigree mapping program. 3. Development and molecular characterization of novel germplasm for crops of interest for South Dakota. A prairie cordgrass germplasm collection developed during 2007 and 2008 is being evaluated in replicated field trials in 3 locations in SD. 2009 growing season was the first one we were able to collect phenotypic data (yield and yield components). Composition analysis will be done during 2010. We also completed a genetic diversity of this collection using DNA markers. This study shows a great amount of genetic diversity. The collection is being used as a base for a prairie cordgrass breeding programs. Populations derived from crosses between clones were transplanted in field trials for phenotypic evaluation. In wheat, we provided the SD wheat breeding program more than 1,700 4-way F2 lines, segregating for different FHB resistance genes, with 170+ different genetic backgrounds.

Publications

  • Boe, Arvid; Owens, Vance; Gonzalez-Hernandez, Jose; Stein, Jeff; Lee, DoKyoung; Koo, BonCheol. 2009. Morphology and Biomass Production of Prairie Cordgrass on Marginal Lands. Global Change Biology Bioenergy. 1:240-250.
  • J.L. Gonzalez-Hernandez, G. Sarath, J.M. Stein, V. Owens, K.Gedye and A. Boe. 2009. A multiple species approach to biomass production from native herbaceous perennial feedstocks. In Vitro Cellular and Developmental Biology Plant. In Vitro Plant. 45:267-281.
  • J.L. Gonzalez-Hernandez, P.K. Singh, M. Mergoum, T.B. Adhikari, S.F. Kianian, & E.M. Elias. 2009. A quantitative trait locus on chromosome 5B controls resistance of Triticum turgidum (L.) var. diccocoides to Stagonospora nodorum blotch. Euphytica. 166:199-206.
  • Jose L. Gonzalez, Arvid Boe, and Vance Owens. 2009. Development of Genomic Tools for the Improvement of Prairie Cordgrass (Spartina pectinata), a Highly Productive Bioenergy Feedstock Crop. GTL Awardee Workshop VII and USDA-DOE Plant Feedstock Genomics for Bioenergy Awardee Workshop 2009. February 8-11, 2009. Bethesda, Maryland.
  • Jose L. Gonzalez-Hernandez, Gregory N. Giszler , Xijin Ge , Kristene Gedye. Sampling The Transcriptome Of Prairie Cordgrass (Spartina pectinata) Using Massively Prallel Pyrosequencing. International Plant and Animal Genome Conference (PAG XVI). January 10-14, 2009. Town & Country Convention Center. San Diego, CA.
  • Jose L. Gonzalez. 2009. Genetics and Genomics of a native perennial grass as bioenergy crops. INvited presentation. Department of Crop Sciences. University of IL. October 7, 2009. Urbana-Champaign, IL
  • Umesh Rosyara, Jose L. Gonzalez-Hernandez, Karl D. Glover, Kristiene Gedye and Jeffrey M. Stein.2009. Family Based Mapping of Quantitative Trait Loci Using Linkage and Association Approach. ASA-CSSA-SSSA Annual Meeting. November 1-5, 2009. Pittsburg, PA
  • U.R. Rosyara, J.L. Gonzalez-Hernandez, K.D. Glover, K. Gedye and J.M. Stein. 2009. MAPPING AND INTROGRESSION OF FHB RESISTANT QUANTITATIVE TRAIT LOCI FROM TWO SPRING WHEAT GENOTYPES USING A FAMILY-BASED APPROACH.In: S. Canty, A. Clark, J. Mundell, E. Walton, D. Ellis and D. Van Sanford (Eds.), Proceedings of the National Fusarium Head Blight Forum; 2009 Dec 7-9; Orlando, FL. Lexington, KY: University of Kentucky.
  • U.R. Rosyara, J.L. Gonzalez-Hernandez, K.D. Glover, K.R. Gedye and J.M. Stein. 2009. Family-based mapping of quantitative trait loci in plant breeding populations with Fusarium head blight resistance in wheat as an illustration. Theoretical and Applied Genetics. 118:1617-1631.
  • Kenneth E. Lamb, Jose L. Gonzalez-Hernandez, Bingxin Zhang, Marci Green, Stephen M. Neate, Paul B. Schwarz, and Richard D. Horsley. 2009. Identification of QTL Conferring Resistance to Fusarium Head Blight Resistance in the Breeding Line C93-3230-24. Crop Sci. 2009 49: 1675-1680.