PERFORM Publications

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Title		Authors	PubMed ID
1	Characterization of secreted epidermal patterning factor peptides and ERECTA family receptors as regulators for root hair development in em Arabidopsis thaliana /em	Hamiditabar Z; Lee JS; Gulick PJ;	41280503 BIOLOGY
2	The caleosin RD20/CLO3 regulates lateral root development in response to abscisic acid and regulates flowering time in conjunction with the caleosin CLO7	Brunetti SC; Arseneault MKM; Gulick PJ;	37812854 BIOLOGY
3	The caleosin CLO7 and its role in the heterotrimeric G-protein signalling network	Brunetti SC; Arseneault MKM; Gulick PJ;	36334585 BIOLOGY
4	Characterization and Expression of the Pirin Gene Family in Triticum aestivum	Brunetti SC; Arseneault MKM; Gulick PJ;	35504035 BIOLOGY
5	Characterization of the heterotrimeric G protein gene families in Triticum aestivum and related species	Gawande ND; Hamiditabar Z; Brunetti SC; Gulick PJ;	35463045 BIOLOGY
6	The stress induced caleosin, RD20/CLO3, acts as a negative regulator of GPA1 in Arabidopsis	Brunetti SC; Arseneault MKM; Wright JA; Wang Z; Ehdaeivand MR; Lowden MJ; Rivoal J; Khalil HB; Garg G; Gulick PJ;	34599731 BIOLOGY
7	Duplicated antagonistic EPF peptides optimize grass stomatal initiation	Jangra R; Brunetti SC; Wang X; Kaushik P; Gulick PJ; Foroud NA; Wang S; Lee JS;	34328169 BIOLOGY
8	Structural variation and rates of genome evolution in the grass family seen through comparison of sequences of genomes greatly differing in size.	Dvorak J, Wang L, Zhu T, Jorgensen CM, Deal KR, Dai X, Dawson MW, Müller HG, Luo MC, Ramasamy RK, Dehghani H, Gu YQ, Gill BS, Distelfeld A, Devos KM, Qi P, You FM, Gulick PJ, McGuire PE	29770515 BIOLOGY
9	Genetic combining ability of coriander genotypes for agronomic and phytochemical traits in response to contrasting irrigation regimes.	Gholizadeh A, Dehghani H, Khodadadi M, Gulick PJ	29953470 BIOLOGY
10	Characterization of the Esi3/RCI2/PMP3 gene family in the Triticeae.	Brunetti SC, Arseneault MKM, Gulick PJ	30537926 BIOLOGY
11	Aegilops tauschii Genome Sequence: A Framework for Meta-analysis of Wheat QTLs.	Xu J, Dai X, Ramasamy RK, Wang L, Zhu T, McGuire PE, Jorgensen CM, Dehghani H, Gulick PJ, Luo MC, Müller HG, Dvorak J	30670607 BIOLOGY
12	Gene expression analysis in the roots of salt-stressed wheat and the cytogenetic derivatives of wheat combined with the salt-tolerant wheatgrass, Lophopyrum elongatum.	Hussein Z, Dryanova A, Maret D, Gulick PJ	24141639 CSFG

Title:	Aegilops tauschii Genome Sequence: A Framework for Meta-analysis of Wheat QTLs.
Authors:	Xu J, Dai X, Ramasamy RK, Wang L, Zhu T, McGuire PE, Jorgensen CM, Dehghani H, Gulick PJ, Luo MC, Müller HG, Dvorak J
Link:	https://www.ncbi.nlm.nih.gov/pubmed/30670607?dopt=Abstract
DOI:	10.1534/g3.118.200921
Publication:	G3 (Bethesda, Md.)
Keywords:	QTL database; QTL distribution; Web portal; fusarium head blight; meta-QTL; probability; recombination rate;
PMID:	30670607	Category:	G3 (Bethesda)	Date Added:	2019-06-07
Dept Affiliation:	BIOLOGY 1 Department of Plant Sciences, University of California, Davis, California. 2 Department of Statistics, Iowa State University, Iowa. 3 Department of Plant Breeding, Faculty of Agriculture, Tarbiat Modares University, Tehran, Iran, and. 4 Department of Biology, Concordia University, Montreal, Quebec, Canada. 5 Department of Statistics, University of California, Davis, California. 6 Department of Plant Sciences, University of California, Davis, California, jdvorak@ucdavis.edu.

Description:

Aegilops tauschii Genome Sequence: A Framework for Meta-analysis of Wheat QTLs.

G3 (Bethesda). 2019 03 07;9(3):841-853

Authors: Xu J, Dai X, Ramasamy RK, Wang L, Zhu T, McGuire PE, Jorgensen CM, Dehghani H, Gulick PJ, Luo MC, Müller HG, Dvorak J

Abstract

Numerous quantitative trait loci (QTL) have been mapped in tetraploid and hexaploid wheat and wheat relatives, mostly with simple sequence repeat (SSR) or single nucleotide polymorphism (SNP) markers. To conduct meta-analysis of QTL requires projecting them onto a common genomic framework, either a consensus genetic map or genomic sequence. The latter strategy is pursued here. Of 774 QTL mapped in wheat and wheat relatives found in the literature, 585 (75.6%) were successfully projected onto the Aegilops tauschii pseudomolecules. QTL mapped with SNP markers were more successfully projected (92.2%) than those mapped with SSR markers (66.2%). The QTL were not distributed homogeneously along chromosome arms. Their frequencies increased in the proximal-to-distal direction but declined in the most distal regions and were weakly correlated with recombination rates along the chromosome arms. Databases for projected SSR markers and QTL were constructed and incorporated into the Ae. tauschii JBrowse. To facilitate meta-QTL analysis, eight clusters of QTL were used to estimate standard deviations ([Formula: see text]) of independently mapped QTL projected onto the Ae. tauschii genome sequence. The standard deviations [Formula: see text] were modeled as an exponential decay function of recombination rates along the Ae. tauschii chromosomes. We implemented four hypothesis tests for determining the membership of query QTL. The hypothesis tests and estimation procedure for [Formula: see text] were implemented in a web portal for meta-analysis of projected QTL. Twenty-one QTL for Fusarium head blight resistance mapped on wheat chromosomes 3A, 3B, and 3D were analyzed to illustrate the use of the portal for meta-QTL analyses.

PMID: 30670607 [PubMed - in process]

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