Key Laboratory of Southwestern Crop Germplasm Utilization

Yaan, China

Key Laboratory of Southwestern Crop Germplasm Utilization

Yaan, China
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Jiang Q.-T.,Sichuan Agricultural University | Liu T.,Sichuan Agricultural University | Ma J.,Sichuan Agricultural University | Wei Y.-M.,Sichuan Agricultural University | And 4 more authors.
Genetica | Year: 2011

The pre-mRNA processing (Prp1) gene encodes a spliceosomal protein. It was firstly identified in fission yeast and plays a regular role during spliceosome activation and cell cycle. Plant Prp1 genes have only been identified from rice, Sorghum and Arabidopsis thaliana. In this study, we reported the identification and isolation of a novel Prp1 gene from barley, and further explored its expressional pattern by using real-time quantitative RT-PCR, promoter prediction and analysis of microarray data. The putative barley Prp1 protein has a similar primary structure features to those of other known Prp1 protein in this family. The results of amino acid comparison indicated that Prp1 protein of barley and other plant species has a highly conserved 3′ termnal region while their 5′ sequences greatly varied. The results of expressional analysis revealed that the expression level of barley Prp1 gene is always stable in different vegetative tissues, except it is up-regulated at the mid- and late stages of seed development or under the condition of cold stress. This kind of expressional pattern for barley Prp1 is also supported by our results of comparison of microarray data from barley, rice and Arabidopsis. For the molecular mechanism of its expressional pattern, we conclude that the expression of Prp1 gene may be up-regulated by the increase of pre-mRNAs and not be constitutive or ubiquitous. © 2012 Springer Science+Business Media B.V.

Jiang Q.-T.,Sichuan Agricultural University | Ma J.,Sichuan Agricultural University | Zhao S.,Sichuan Agricultural University | Zhao Q.-Z.,Sichuan Agricultural University | And 5 more authors.
Genetica | Year: 2012

In this study, we report the expression of HMW-GSs in 87 accessions of tetraploid wheat, the characterization of three inactive and one active HMW glutenin genes, and the functional verification of HMW-GSs by promoter-GUS expression. SDS-PAGE profiles revealed that tetraploid wheat has many different combinations of HMW-GSs and the number of subunits varies from 1 to 4. HMW glutenin genes at the Glu-A1x, Glu-A1y and Glu-B1y loci exhibited different frequencies of inaction while the Glu-B1x allele was expressed in all 87 accessions. Gene cloning showed that only 1Bx (Tdu-e) could express a full-length protein and its deduced protein sequence has the typical primary structure but with fewer cysteine residues. The expression of the other three HMW glutenin genes has been disrupted by stop codons in their repetitive domains. Besides short indels or mutations of one or more bases, an 85-bp deletion and a 185-bp insertion were found in the promoter regions of 1Ay (Tdu-s) and 1Bx (Tdu-e). The transient expression of promoter-GUS constructs indicated that the 1Ay promoter can drive expression of the GUS gene. We conclude that defects (stop codons or the insertion of large transposon-like elements) in the coding regions may be the most probable cause for the inaction of the HMW glutenin genes. © 2012 Springer Science+Business Media Dordrecht.

Dong P.,Sichuan Agricultural University | Wei Y.-M.,Sichuan Agricultural University | Chen G.-Y.,Sichuan Agricultural University | Li W.,Sichuan Agricultural University | And 4 more authors.
Biochemical Systematics and Ecology | Year: 2010

Genetic diversity and population structure of 15 wild emmer wheat (Triticum dicoccoides) populations from Israel were detected by 30 sequence-related amplified polymorphism (SRAP) primer pairs. Two hundred and forty four fragments out of 438 were polymorphic. The proportion of polymorphic loci (P), the genetic diversity (He), and Shannon's information index were 0.557, 0.198, and 0.295, respectively. The population Amirim had the highest genetic variation, whereas the population of Tabigha had the lowest genetic variation. The hierarchical analysis of molecular variance (AMOVA) revealed that most of the variation was presented within populations. The value of genetic distance (D) between the populations varied from 0.027 to 0.165 with an average of 0.079, and the estimates of genetic distance were geographically independent based on the Mantel test (r = 0.105, P = 0.168). A total of 30 significant (P < 0.05) correlations were detected between 14 SRAP loci and 12 ecogeographic factors. Crown Copyright © 2009.

Mao S.-L.,Sichuan Agricultural University | Mao S.-L.,Key Laboratory of Southwestern Crop Germplasm Utilization | Wei Y.-M.,Sichuan Agricultural University | Wei Y.-M.,Key Laboratory of Southwestern Crop Germplasm Utilization | And 9 more authors.
Euphytica | Year: 2010

Fusarium head blight (FHB) is a serious wheat disease all over the world. In this study, the relationships between plant height (PH) and FHB were investigated across the whole wheat genome by QTL meta-analysis from fifty-six experiments. Coincident meta-QTL (MQTL) for PH and FHB were found on chromosomes 2D, 3A, 4B, 4D and 7A. Rht-B1, Rht-D1, Rht8, MQTLs P7 and P26 were consistent with FHB MQTLs. The meta-analysis results confirmed the negative associations of Rht-B1, Rht-D1, and Rht8 with FHB resistance. The associations of PH and FHB resistance on chromosomes 3A and 7A have not been reported and need further investigation. These regions should be given attention in breeding programs. MQTLs derived from several resistance sources were also observed. Some FHB MQTLs for different types of resistance overlapped. These findings could be useful for improving wheat varieties with resistance to FHB. © 2010 Springer Science+Business Media B.V.

Wang C.-J.,Sichuan Agricultural University | Zhang L.-Q.,Sichuan Agricultural University | Dai S.-F.,Sichuan Agricultural University | Zheng Y.-L.,Sichuan Agricultural University | And 4 more authors.
Euphytica | Year: 2010

It is believed that unreduced gametes with somatic chromosome numbers play a predominant role in natural polyploidization. Allohexaploid bread wheat originated from spontaneous hybridization of Triticum turgidum L. with Aegilops tauschii Coss. Unreduced gametes originating via meiotic restitution, including first-division restitution (FDR) and single-division meiosis (SDM), are well documented in triploid F1 hybrids of T. turgidum with diploid Ae. tauschii (genomic constitution ABD, usually with 21 univalents in meiotic metaphase I). In this study, two T. turgidum lines known to carry genes for meiotic restitution were crossed to tetraploid Ae. tauschii. The resulting F1 hybrids (genomes ABDD), had seven pairs of homologous chromosomes and regularly formed 14 univalents and seven bivalents at metaphase I. Neither FDR nor SDM were observed. The distribution of chromosome numbers among progeny obtained by self pollination and a backcross to T. turgidum showed the absence of unreduced gametes. These results suggest that high homologous pairing interfered with meiotic restitution and the formation of unreduced gametes. This may be related to asynchronous movement during meiosis between paired and unpaired chromosomes or to uneven distribution of chromosomes in anaphases, resulting in nonviable gametes. © 2010 Springer Science+Business Media B.V.

Liu Y.-X.,Sichuan Agricultural University | Wang J.-R.,Sichuan Agricultural University | Wang J.-R.,University of California at Davis | Liu Z.-H.,Sichuan Agricultural University | And 7 more authors.
Journal of Systematics and Evolution | Year: 2014

Alpha-amylases play essential roles in germination, and the malting and brewing processes, by hydrolyzing starch granules present in the endosperm of barley. Hordeum spontaneum C. Koch, the progenitor of cultivated barley that harbors rich genetic diversity, was collected from seven different environments. To investigate the influence of microclimatic ecological divergence on α-amylase, single nucleotide polymorphisms (SNPs) in amy genes from these populations were determined. A total of 16 and 17 SNPs were detected in the coding sequences of amy1 and amy2, respectively, from the seven wild barley populations. Among these SNPs, three in amy1-2 and nine in amy2-2 were significantly associated with ecological factors. The genetic divergence of amy sequences was significantly different among the populations. Natural microclimatic selection was apparently the major evolutionary driving force causing interslope divergence and adaptive evolution of these genes. The genetic variation in amy1-2 and amy2-2 was at least partly ecologically determined in these populations, representing adaptive patterns generated by natural selection. The SNPs were apparently generated by natural selection in climatic environmental patterns at both the micro ("Evolution Canyon") and macro (across Israel, Galilee, and Negev) scales. © 2014 Institute of Botany, Chinese Academy of Sciences.

Ma J.,Sichuan Agricultural University | Jiang Q.-T.,Sichuan Agricultural University | Wei Y.-M.,Sichuan Agricultural University | Andre L.,Agriculture and Agri Food Canada | And 4 more authors.
Genes and Genomics | Year: 2010

Two alleles of the barley waxy locus were characterized from non-waxy cultivar Bowman and waxy cultivar CDC Candle, respectively. Their nucleotide and protein sequences were compared with other known waxy genes. The comparison results indicated that there were 100 polymorphic sites, among which 69 were in the non-coding region and 31 were in the coding region. Out of 100 polymorphic sites, 45 were transversion, 35 were transition and 20 were indels. A 397 bp deletion and a 193 bp insertion in the promoter region and a 15 bp insertion in the coding region were found in CDC Candle, but not in Bowman. A deletion (11 bp) was detected in Bowman, which exhibited no effects on normal waxy expression. In summary, the 397 bp deletion was supposed to account for the reduction of GBSS I, resulting in the low amylose in CDC Candle; whereas other polymorphic sites might be not correlated with amylose synthesis. © The Genetics Society of Korea and Springer 2010.

Li W.-T.,Sichuan Agricultural University | Huang X.,Sichuan Agricultural University | Wang J.-R.,Sichuan Agricultural University | Chen G.-Y.,Sichuan Agricultural University | And 3 more authors.
Hereditas | Year: 2010

Specific primers were designed to amplify the sequences of Hina genes from 121 wild barley (Hordeum spontaneum) accessions belonging to 18 populations from Iran, Israel and Turkey. Forty-nine single nucleotide polymorphisms (SNPs), nine indels, and 26 haplotypes were determined by sequence analysis. The genetic polymorphism (P), genetic diversity (He), and Shannon's information index (I) in the 18 populations were 0.486, 0.181 and 0.269, respectively. Approximately 2/3 genetic variations of Hina genes were presented within populations, while approximately 1/3 genetic variations were observed between populations. Broad gene flow (Nm= 3.31) and low genetic variation (Gst= 0.0702) were detected. However, the genetic differentiation between populations was independent of geographical distances according to the Mantel test (p = 0.478). The result of Spearman rank correlations (rs) showed that the genetic indices (P, He and I) of Hina were not significantly correlated with ecological factors. Only eight SNP positions correlated significantly with ecological factors. Of the eight SNP positions that positively correlated with ecological factors, only one SNP (769, T-C) was located in the coding region; however, it was not responsible for the amino acid change. © 2009 The Authors.

XIONG L.-j.,Sichuan Agricultural University | WANG J.-r.,Sichuan Agricultural University | WANG J.-r.,Key Laboratory of Southwestern Crop Germplasm Utilization | ZHENG Y.-l.,Sichuan Agricultural University | ZHENG Y.-l.,Key Laboratory of Southwestern Crop Germplasm Utilization
Agricultural Sciences in China | Year: 2010

Novel LMW-GS (low molecular weight glutenin subunit), α- and γ-gliadin from Triticum macha accessions were characterized via genomic PCR, which can do favor to improve the wheat quality. The complete coding regions of two α-gliadin, two γ-gliadin and two LMW-GS gene sequences, which designed as Gli-Mal, Gli-Ma2, Gli-Mr1, Gli-Mr2, Glu-LM1 and Glu-LM2, encoded the mature proteins with 307, 241, 348, 302, 474 and 377 amino acid residues, respectively. Gli-Mal and Gli-Ma2 were recognized as pseudogenes due to the in-frame stop codons. The amino acid sequences deduced from these gene sequences were characterized with the typical structure of α- or γ-gliadin or LMW- m type proteins with the exception of Gli-Ma2. Phylogenetic analysis showed Gli-Mal was closely related to those from T. aestivum, whereas Gli-Ma2 seemed to be more homologous with the gene sequences from Dasypyrum breviaristatum. Gli-Mr1 was closely related to those from T. turgidum ssp. dicoccoides, while Gli-Mr2 was the nearest to those from T. aestivum. Glu-LM1 was closely related to those from Aegilops tauschii, whereas Glu-LM2 seemed to be more homologous with those from T. durum. © 2010 Chinese Academy of Agricultural Sciences.

Jiang Q.-T.,Sichuan Agricultural University | Jiang Q.-T.,Agriculture and Agri Food Canada | Wei Y.-M.,Sichuan Agricultural University | Wang J.-R.,Sichuan Agricultural University | And 3 more authors.
Plant Systematics and Evolution | Year: 2010

Sequence polymorphisms and phylogenetic relationships from different genomes of 25 diploid species in Triticeae (Poaceae) were evaluated by using the sequences of y-type high-molecular-weight glutenin promoter (y-HGP). The length of the amplified y-HGP sequences ranged from 845 to 915 base pairs (bp) in the 25 species of Triticeae. Multiple sequence alignment showed conserved and variable parts in the y-HGP sequences. Higher sequence conservation was detected in the regulatory elements of y-HGP. An 85-bp deletion was found in eight species of Triticum, Aegilops, and Hordeum. Several species-specific indels were identified in the y-HGP from Psathyrostachys, Hordeum, and Pseudoroegneria. Maximum parsimony (MP) and Bayesian analyses defined an Aegilops/Triticum group consisting of closely related species. A close relationship between Pseudoroegneria and the clade of Australopyrum, Dasypyrum, and Agropyron was also strongly supported in the topologies of MP and Bayesian trees. As y-HGP has sufficient amounts of genetic variation and is a single-copy region in diploid Triticeae, it is useful in phylogenetic analyses of this group. © 2010 Springer-Verlag.

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