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https://www.readbyqxmd.com/read/28187716/the-abundance-of-homoeologue-transcripts-is-disrupted-by-hybridization-and-is-partially-restored-by-genome-doubling-in-synthetic-hexaploid-wheat
#1
Ming Hao, Aili Li, Tongwei Shi, Jiangtao Luo, Lianquan Zhang, Xuechuan Zhang, Shunzong Ning, Zhongwei Yuan, Deying Zeng, Xingchen Kong, Xiaolong Li, Hongkun Zheng, Xiujin Lan, Huaigang Zhang, Youliang Zheng, Long Mao, Dengcai Liu
BACKGROUND: The formation of an allopolyploid is a two step process, comprising an initial wide hybridization event, which is later followed by a whole genome doubling. Both processes can affect the transcription of homoeologues. Here, RNA-Seq was used to obtain the genome-wide leaf transcriptome of two independent Triticum turgidum × Aegilops tauschii allotriploids (F1), along with their spontaneous allohexaploids (S1) and their parental lines. The resulting sequence data were then used to characterize variation in homoeologue transcript abundance...
February 10, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28163591/cytological-characterization-of-a-thermo-sensitive-cytoplasmic-male-sterile-wheat-line-having-k-type-cytoplasm-of-aegilops-kotschyi
#2
Liying Meng, Zihan Liu, Lingli Zhang, Gan Hu, Xiyue Song
Male sterility is an important tool for obtaining crop heterosis. A thermo-sensitive cytoplasmic male-sterile (TCMS) line was developed recently using a new method based on tiller regeneration. In the present study, we explored the critical growth stages required to maintain thermo-sensitive male sterility in TCMS lines and found that fertility is associated with abnormal tapetal and microspore development. We investigated the fertility and cytology of temperature-treated plant anthers at various developmental stages...
December 2016: Breeding Science
https://www.readbyqxmd.com/read/28130360/hybrid-assembly-of-the-large-and-highly-repetitive-genome-of-aegilops-tauschii-a-progenitor-of-bread-wheat-with-the-mega-reads-algorithm
#3
Aleksey V Zimin, Daniela Puiu, Ming-Cheng Luo, Tingting Zhu, Sergey Koren, Guillaume Marcais, James A Yorke, Jan Dvorak, Steven L Salzberg
LLong sequencing reads generated by single-molecule sequencing technology offer the possibility of dramatically improving the contiguity of genome assemblies. The biggest challenge today is that long reads have relatively high error rates, currently around 15%. The high error rates make it difficult to use this data alone, particularly with highly repetitive plant genomes. Errors in the raw data can lead to insertion or deletion errors (indels) in the consensus genome sequence, which in turn create significant problems for downstream analysis; for example, a single indel may shift the reading frame and incorrectly truncate a protein sequence...
January 27, 2017: Genome Research
https://www.readbyqxmd.com/read/28116459/homoeologous-recombination-based-transfer-and-molecular-cytogenetic-mapping-of-powdery-mildew-resistant-gene-pm57-from-aegilops-searsii-into-wheat
#4
Wenxuan Liu, Dal-Hoe Koo, Qing Xia, Chunxin Li, Fuqiang Bai, Yuli Song, Bernd Friebe, Bikram S Gill
Pm57, a novel resistant gene against powdery mildew, was transferred into common wheat from Ae. searsi and further mapped to 2S (s) #1L at an interval of FL0.75 to FL0.87. Powdery mildew, caused by the fungus Blumeria graminis f. sp. tritici, is one of the most severe foliar diseases of wheat causing reduction in grain yield and quality. Host plant resistance is the most effective and environmentally safe approach to control this disease. Tests of a set of Chinese Spring-Ae. searsii (S(s)S(s), 2n = 2x = 14) Feldman & Kislev ex K...
January 23, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28111365/plantrgdb-a-database-of-plant-retrocopied-genes
#5
Yi Wang
RNA-based gene duplication, known as retrocopy, plays important roles in gene origination and genome evolution. The genomes of many plants have been sequenced, offering an opportunity to annotate and mine the retrocopies in plant genomes. However, comprehensive and unified annotation of retrocopies in these plants is still lacking. In this study I constructed the PlantRGDB (Plant Retrocopied Gene DataBase), the first database of plant retrocopies, to provide a putatively complete centralized list of retrocopies in plant genomes...
January 22, 2017: Plant & Cell Physiology
https://www.readbyqxmd.com/read/28087646/wheat-genotypes-with-combined-resistance-to-wheat-curl-mite-wheat-streak-mosaic-virus-wheat-mosaic-virus-and-triticum-mosaic-virus
#6
Wen-Po Chuang, Lina Maria Aguirre Rojas, Luaay Kahtan Khalaf, Guorong Zhang, Allan K Fritz, Anna E Whitfield, C Michael Smith
The wheat curl mite, Aceria tosichella Keifer, (WCM) is a global pest of bread wheat that reduces yields significantly. In addition, WCM carries Wheat streak mosaic virus (WSMV, family Potyviridae, genus Tritimovirus), the most significant wheat virus in North America; High Plains wheat mosaic virus (HPWMoV, genus Emaravirus, formerly High plains virus); and Triticum mosaic virus (TriMV, family Potyviridae, genus Poacevirus). Viruses carried by WCM have reduced wheat yields throughout the U.S. Great Plains for >50 yr, with average yield losses of 2-3% and occasional yield losses of 7-10%...
January 13, 2017: Journal of Economic Entomology
https://www.readbyqxmd.com/read/28046090/spatial-pattern-and-scale-influence-invader-demographic-response-to-simulated-precipitation-change-in-an-annual-grassland-community
#7
Meghan J Skaer Thomason, Kevin J Rice
It is important to predict which invasive species will benefit from future changes in climate, and thereby identify those invaders that need particular attention and prioritization of management efforts. Because establishment, persistence, and spread determine invasion success, this prediction requires detailed demographic information. Explicit study of the impact of pattern on demographic response is particularly important for species that are naturally patchy, such as the invasive grass, Aegilops triuncialis...
2017: PloS One
https://www.readbyqxmd.com/read/28042823/identification-and-analysis-of-rna-editing-sites-in-the-chloroplast-transcripts-of-aegilops-tauschii-l
#8
Mengxing Wang, Hui Liu, Lingqiao Ge, Guangwei Xing, Meng Wang, Song Weining, Xiaojun Nie
RNA editing is an important way to convert cytidine (C) to uridine (U) at specific sites within RNA molecules at a post-transcriptional level in the chloroplasts of higher plants. Although it has been systematically studied in many plants, little is known about RNA editing in the wheat D genome donor Aegilops tauschii L. Here, we investigated the chloroplast RNA editing of Ae. tauschii and compared it with other wheat relatives to trace the evolution of wheat. Through bioinformatics prediction, a total of 34 C-to-U editing sites were identified, 17 of which were validated using RT-PCR product sequencing...
December 30, 2016: Genes
https://www.readbyqxmd.com/read/27994192/mapping-of-stripe-rust-resistance-gene-in-an-aegilops-caudate-introgression-line-in-wheat-and-its-genetic-association-with-leaf-rust-resistance
#9
Puneet Inder Toor, Satinder Kaur, Mitaly Bansal, Bharat Yadav, Parveen Chhuneja
A pair of stripe rust and leaf rust resistance genes was introgressed from Aegilops caudata, a nonprogenitor diploid species with the CC genome, to cultivated wheat. Inheritance and genetic mapping of stripe rust resistance gene in backcrossrecombinant inbred line (BC-RIL) population derived from the cross of a wheat-Ae. caudata introgression line (IL) T291- 2(pau16060) with wheat cv. PBW343 is reported here. Segregation of BC-RILs for stripe rust resistance depicted a single major gene conditioning adult plant resistance (APR) with stripe rust reaction varying from TR-20MS in resistant RILs signifying the presence of some minor genes as well...
December 2016: Journal of Genetics
https://www.readbyqxmd.com/read/27994180/chromosomal-structural-changes-and-microsatellite-variations-in-newly-synthesized-hexaploid-wheat-mediated-by-unreduced-gametes
#10
Hao Li, Yajuan Wang, Xiaoxue Guo, Yinpeng Du, Changyou Wang, Wanquan Ji
Allohexaploid wheat was derived from interspecific hybridization, followed by spontaneous chromosome doubling. Newly synthesized hexaploid wheat by crossing Triticum turgidum and Aegilops tauschii provides a classical model to understand the mechanisms of allohexaploidization in wheat. However, immediate chromosome level variation and microsatellite level variation of newly synthesized hexaploid wheat have been rarely reported. Here, unreduced gametes were applied to develop synthesized hexaploid wheat, NA0928, population by crossing T...
December 2016: Journal of Genetics
https://www.readbyqxmd.com/read/27978816/genotype-by-sequencing-facilitates-genetic-mapping-of-a-stem-rust-resistance-locus-in-aegilops-umbellulata-a-wild-relative-of-cultivated-wheat
#11
Erena A Edae, Pablo D Olivera, Yue Jin, Jesse A Poland, Matthew N Rouse
BACKGROUND: Wild relatives of wheat play a significant role in wheat improvement as a source of genetic diversity. Stem rust disease of wheat causes significant yield losses at the global level and stem rust pathogen race TTKSK (Ug99) is virulent to most previously deployed resistance genes. Therefore, the objective of this study was to identify loci conferring resistance to stem rust pathogen races including Ug99 in an Aegilops umbelluata bi-parental mapping population using genotype-by-sequencing (GBS) SNP markers...
December 15, 2016: BMC Genomics
https://www.readbyqxmd.com/read/27942245/molecular-diversity-of-%C3%AE-gliadin-expressed-genes-in-genetically-contrasted-spelt-triticum-aestivum-ssp-spelta-accessions-and-comparison-with-bread-wheat-t-aestivum-ssp-aestivum-and-related-diploid-triticum-and-aegilops-species
#12
Benjamin Dubois, Pierre Bertin, Dominique Mingeot
The gluten proteins of cereals such as bread wheat (Triticum aestivum ssp. aestivum) and spelt (T. aestivum ssp. spelta) are responsible for celiac disease (CD). The α-gliadins constitute the most immunogenic class of gluten proteins as they include four main T-cell stimulatory epitopes that affect CD patients. Spelt has been less studied than bread wheat and could constitute a source of valuable diversity. The objective of this work was to study the genetic diversity of spelt α-gliadin transcripts and to compare it with those of bread wheat...
2016: Molecular Breeding: New Strategies in Plant Improvement
https://www.readbyqxmd.com/read/27929044/salt-tolerance-during-germination-and-seedling-growth-of-wild-wheat-aegilops-tauschii-and-its-impact-on-the-species-range-expansion
#13
Daisuke Saisho, Shigeo Takumi, Yoshihiro Matsuoka
Adaptation to edaphic stress may have a key role in plant species range expansion. Aegilops tauschii Coss., the common wheat's D-genome progenitor native to the Transcaucasus-Middle East region, is a good model to study the relationships between soil salinity and plant distributions: one of its intraspecific sublineages, TauL1b, drove the long-distance eastward expansion of this species range reaching semi-arid-central Asia. Salt tolerance during germination and seedling growth was evaluated in 206 Ae. tauschii accessions by treating seeds with NaCl solutions differing in concentrations...
December 8, 2016: Scientific Reports
https://www.readbyqxmd.com/read/27917571/comparative-germination-responses-to-water-potential-across-different-populations-of-aegilops-geniculata-and-cultivar-varieties-of-triticum-durum-and-triticum-aestivum
#14
S Orsenigo, F Guzzon, T Abeli, G Rossi, I Vagge, A Balestrazzi, A Mondoni, J V Müller
Crop Wild Relatives are often used to improve crop quality and yields because they contain genetically important traits that can contribute to stress resistance and adaptation. Seed germination of different populations of Aegilops geniculata Roth collected along a latitudinal gradient was studied under different drought stress in order to find populations suitable for improving drought tolerance in wheat. Different accessions of Aegilops neglecta Req. ex Bertol., Triticum aestivum L. and T. durum Desf. were used as comparison...
December 5, 2016: Plant Biology
https://www.readbyqxmd.com/read/27913833/tight-repulsion-linkage-between-sr36-and-sr39-was-revealed-by-genetic-cytogenetic-and-molecular-analyses
#15
Bosco Chemayek, Urmil K Bansal, Naeela Qureshi, Peng Zhang, William W Wagoire, Harbans S Bariana
The shortening of Aegilops speltoides segment did not facilitate recombination between stem rust resistance genes Sr36 and Sr39 . Robustness of marker rwgs28 for marker-assisted selection of Sr39 was demonstrated. Stem rust resistance genes Sr39 and Sr36 were transferred from Aegilops speltoides and Triticum timopheevii, respectively, to chromosome 2B of wheat. Genetic stocks RL6082 and RWG1 carrying Sr39 on a large and a shortened Ae. speltoides segments, respectively, and the Sr36-carrying Australian wheat cultivar Cook were used in this study...
December 2, 2016: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/27909815/homoeologous-recombination-in-the-presence-of-ph1-gene-in-wheat
#16
Dal-Hoe Koo, Wenxuan Liu, Bernd Friebe, Bikram S Gill
A crossover (CO) and its cytological signature, the chiasma, are major features of eukaryotic meiosis. The formation of at least one CO/chiasma between homologous chromosome pairs is essential for accurate chromosome segregation at the first meiotic division and genetic recombination. Polyploid organisms with multiple sets of homoeologous chromosomes have evolved additional mechanisms for the regulation of CO/chiasma. In hexaploid wheat (2n = 6× = 42), this is accomplished by pairing homoeologous (Ph) genes, with Ph1 having the strongest effect on suppressing homoeologous recombination and homoeologous COs...
December 1, 2016: Chromosoma
https://www.readbyqxmd.com/read/27900504/a-large-scale-chromosome-specific-snp-discovery-guideline
#17
Bala Ani Akpinar, Stuart Lucas, Hikmet Budak
Single-nucleotide polymorphisms (SNPs) are the most prevalent type of variation in genomes that are increasingly being used as molecular markers in diversity analyses, mapping and cloning of genes, and germplasm characterization. However, only a few studies reported large-scale SNP discovery in Aegilops tauschii, restricting their potential use as markers for the low-polymorphic D genome. Here, we report 68,592 SNPs found on the gene-related sequences of the 5D chromosome of Ae. tauschii genotype MvGB589 using genomic and transcriptomic sequences from seven Ae...
January 2017: Functional & Integrative Genomics
https://www.readbyqxmd.com/read/27887035/impact-of-transgene-genome-location-on-gene-migration-from-herbicide-resistant-wheat-triticum-aestivum-l-to-jointed-goatgrass-aegilops-cylindrica-host
#18
Maqsood Rehman, Jennifer L Hansen, Carol A Mallory-Smith, Robert S Zemetra
BACKGROUND: Wheat (Triticum aestivum) (ABD) and jointed goatgrass (Aegilops cylindrica) (CD) can cross and produce hybrids that can backcross to either parent. Such backcrosses can result in progeny with chromosomes and/or chromosome segments retained from wheat. Thus, a herbicide resistance gene could migrate from wheat to jointed goatgrass. In theory, the risk of gene migration from herbicide-resistant wheat to jointed goatgrass is more likely if the gene is located on the D genome and less likely if the gene is located on the A or B genome of wheat...
November 25, 2016: Pest Management Science
https://www.readbyqxmd.com/read/27814405/the-2ns-translocation-from-aegilops-ventricosa-confers-resistance-to-the-triticum-pathotype-of-magnaporthe-oryzae
#19
C D Cruz, G L Peterson, W W Bockus, P Kankanala, J Dubcovsky, K W Jordan, E Akhunov, F Chumley, F D Baldelomar, B Valent
Wheat blast is a serious disease caused by the fungus Magnaporthe oryzae (Triticum pathotype) (MoT). The objective of this study was to determine the effect of the 2NS translocation from Aegilops ventricosa (Zhuk.) Chennav on wheat head and leaf blast resistance. Disease phenotyping experiments were conducted in growth chamber, greenhouse, and field environments. Among 418 cultivars of wheat (Triticum aestivum L.), those with 2NS had 50.4 to 72.3% less head blast than those without 2NS when inoculated with an older MoT isolate under growth chamber conditions...
2016: Crop Science
https://www.readbyqxmd.com/read/27812277/a-bioinformatics-approach-for-detecting-repetitive-nested-motifs-using-pattern-matching
#20
José R Romero, Jessica A Carballido, Ingrid Garbus, Viviana C Echenique, Ignacio Ponzoni
The identification of nested motifs in genomic sequences is a complex computational problem. The detection of these patterns is important to allow the discovery of transposable element (TE) insertions, incomplete reverse transcripts, deletions, and/or mutations. In this study, a de novo strategy for detecting patterns that represent nested motifs was designed based on exhaustive searches for pairs of motifs and combinatorial pattern analysis. These patterns can be grouped into three categories, motifs within other motifs, motifs flanked by other motifs, and motifs of large size...
2016: Evolutionary Bioinformatics Online
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