TILLING Database Updated for June

Submitted by hansvg on

Hello,

Today, we released the next version of the TILLING wheat database with 149 new samples. This release has 1105 samples available to be searched through the online tool. We have also included a new feature in this release. Now, when you click on a SNP in the visualization window, you will see a new 'hethom' field in the popup info box. This indicates whether the SNP was called as homozygous or heterozygous.  Previously, this information was only available when right-clicking on a SNP and downloading the results.  

TILLING Database Updated for June

Submitted by hansvg on

Hello,

Last night, we released the next version of the TILLING wheat database with 149 new samples.  This release has 1105 samples available to be searched through the online tool.  We have also included a new feature in this release.  Now, when you click on a SNP in the visualization window, you will see a new 'hethom' field in the popup info box.  This indicates whether the SNP was called as homozygous or heterozygous.  

[Affiliate users] TILLING Database Updated for February

Submitted by hansvg on

hansvg has sent you a group email from Dubcovsky Lab.

Hi Everyone,

We released the next version of the TILLING wheat database with 160 new
samples. This new release has 757 samples available to be searched through
the online tool.

As always, please feel free to email with any problems or comments.
Especially if you find contigs where you know the annotation, but there is
no annotation or mis-annotation!

Baoju Yang

Education: 

     

  • 2013.08~present    Postdoctoral researcher in Jorge Dubcovsky’lab,
  •                                Department of Plant Science, University of California, Davis
  •                   2013     Ph.D in Crop Genetics and Breeding
  •                                College of Agronomy Northwest A&F University, China
  •                                (Joint Ph.D student for 2 years at University of California, Davis, U.S)
  •                   2009    M.S. in Crop Genetics and Breeding
  •                                College of Agronomy Northwest A&F University, China
  •                   2003    B.S. in Agronomy
  •                               College of Agronomy Northwest A&F University, China

Bio: 

RESEARCH INTERESTS

  • Plant-pathogen interaction
  • Comparative analysis of interactome of key nodes in non-RD kinase mediated pathway between rice and wheat against the pathogen infection
  • Identification of QTL and mapping resistant genes to rusts and powdery mildew in wheat
  • Identification of genes controlling chromosome stability and develop their applications in wheat breeding

 

Publications: 

  • Li H, Wang C Y, Fu S, Guo X, Yang B J, Chen C H, Zhang H, Wang Y J, Liu X L, Han F P, Ji W Q*. 2014. Development and discrimination of 12 double ditelosomics in tetraploid wheat cultivar DR147. Genome. 57(2):89-95.
  • Cantu D, Yang B J, Ruan R, Li K, Menzo V, Fu D, Chern M, Ronald P C*, Dubcovsky J*. 2013. Comparative analysis of protein-protein interactions in the defense response of rice and wheat. BMC Genomics, 14:166. (Co-first author)
  • Yang B J, Ruan R, Cantu D, Wang X, Ronald P C*, Ji W Q*, Dubcovsky J*. 2013. A comparative approach expands the protein-protein interaction node of the immune receptor XA21 in wheat and rice. Genome, 56(6):315-326.
  • Yang B J, Wang C Y, Xue F, Zhang H, Wang Y J, Liu X L, Ji W Q*. 2013. Chromosome location and SSR markers of a stripe rust resistance gene from wheat (Triticum aestivum) line N9738. Pak. J. Bot. 45(3): 719-724.
  • Zhang H, Yang B J, Wang Y J , Wang C Y, Liu X L, Ji W Q*. 2013. Molecular characterization and expression of a pathogen-induced senescence-associated gene in wheat (Triticum aestivum). Australasian Plant Pathol. 42(1):53-61.
  • Zhang H, Hu Y G, Yang B J, Xue F, Wang C Y, Kang Z S, Ji W Q*. 2013. Isolation and characterization of a wheat IF2 homolog required for innate immunity to stripe rust. Plant Cell Rep. 32(5):591-600.
  • Xue F, Ji W Q*, Wang C Y, Zhang H, Yang B J. 2012. High-density mapping and marker development for the powdery mildew resistance gene PmAS846 derived from wild emmer wheat (Triticum turgidum var. dicoccoides). Theor. Appl. Genet. 124(8):1549-60.
  • Yang B J, Wang Y J, Ji W Q*. 2009. Genetic diversity of HMW-GS composition in wheat landraces from Middle and Low Yangtze Valleys Winter Wheat Region. Acta Agriculturae Boreali-occidentalis Sinica, 18(2):59~63

María Alejandra Alvarez

Education: 

2016 - PhD in Biotechnology and Molecular Biology, National University of San Martin, Argentina. Dissertation: Control of flowering time and spike development in wheat: positional cloning of the earliness per se gene Eps-Am1. Advisor: Dr. Jorge Dubcovsky. Co-advisor: Dr. Gabriela Tranquilli.

2008 - Master of Science in Biotechnology, National University of San Martin, Argentina. Dissertation: Assessment of genetic diversity in a cassava in vitro collection using molecular markers

2006 - Bachelor of Science in Biotechnology, National University of San Martin, Argentina

 

Bio: 

I'm a HHMI Research Associate currently working on the functional characterization of genes that control the response to photoperiod in wheat using genetics and molecular biology tools, such as mutagenesis, transgenesis, epistatic interaction studies, gene expression analysis, and detailed phenotypic evaluations. For my PhD dissertation, I carried out the positional cloning of a wheat gene that controls heading time and increases the number of spikelets and grains per spike, two major yield components. After identifying the causal gene, I was able to transfer the favorable alleles from einkorn wheat into commercially relevant pasta and bread wheat varieties from the UC Davis and CIMMYT breeding programs and test its effects in field trials. As a postdoctoral scholar, I continued working on the molecular dissection of spike yield components in wheat, studying and deploying genes that modulate grain size, grain number, and biomass accumulation.

Publications: 

Shaw LM*, Li C*, Woods DP*, Alvarez MA*, Lin H, Lau MY, et al. (2020) Epistatic interactions between PHOTOPERIOD1, CONSTANS1 and CONSTANS2 modulate the photoperiodic response in wheat. PLoS Genet 16(7): e1008812. https://doi.org/10.1371/journal.pgen.1008812

Kippes N, Guedira M, Lin L, Alvarez MA, Brown-Guedira GL, Dubcovsky (2018​) Single nucleotide polymorphisms in a regulatory site of VRN-A1 first intron are associated with differences in vernalization requirement in winter wheat.​ Mol Genet Genomics. 93: 1231. https://doi.org/10.1007/s00438-018-1455-0

Alvarez MA, Tranquilli G, Lewis S, Kippes N, Dubcovsky J (2016) Genetic and physical mapping of the earliness per se locus Eps-Am1 in Triticum monococcum identifies EARLY FLOWERING 3 (ELF3) as a candidate gene. Funct Integr Genomics https://doi.org/10.1007/s10142-016-0490-3

Maria A Alvarez, Sabrina M Costa Tartara, Carla M Arizio & Maria M Manifesto. 2014. Identification of cassava clones through molecular. Revista Ciencia y Tecnología de los Cultivos Industriales (ISSN 1853 -7677). Programa Nacional de Cultivos Industriales (Ed.). INTA. Año 4, Nº 6: 39-46

Manifesto MM, Costa Tártara SM, Arizio CM, Alvarez MA & Hompanera NR. 2010. Analysis of the morphological attributes of a sweetpotato collection. Annals of Applied Biology 157(2): 273-281

Manifesto MM, Arizio CM, Costa Tartara SM & Alvarez MA. 2010. Molecular Markers in Germplasm Banks: applications in collections of cassava, sweet potato and quinoa. Análisis de Semillas Nº 14, Vol. 2, Tomo IV

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