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https://www.readbyqxmd.com/read/28443124/fine-mapping-of-a-resistance-gene-rpshn-that-controls-phytophthora-sojae-using-recombinant-inbred-lines-and-secondary-populations
#1
Jingping Niu, Na Guo, Jutao Sun, Lihong Li, Yongce Cao, Shuguang Li, Jianli Huang, Jinming Zhao, Tuanjie Zhao, Han Xing
Phytophthora root rot (PRR), caused by Phytophthora sojae, has negative effects on soybean yield in China and can be controlled by identifying germplasm resources with resistance genes. In this study, the resistance locus RpsHN in the soybean line Meng8206 was mapped using two mapping populations. Initial mapping was realized using two recombinant inbred line (RIL) populations and included 103 F6:8 RILs derived from a cross of Meng8206 × Linhedafenqing, including 2600 bin markers, and 130 F6:8 RILs derived from a cross of Meng8206 × Zhengyang148, including 2267 bin markers...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28443109/novel-alleles-of-phosphorus-starvation-tolerance-1-gene-pstol1-from-oryza-rufipogon-confers-high-phosphorus-uptake-efficiency
#2
Kumari Neelam, Shiwali Thakur, Neha, Inderjit S Yadav, Kishor Kumar, Salwinder S Dhaliwal, Kuldeep Singh
Limited phosphorus availability in the soil is one of the major constraints to the growth and productivity of rice across Asian, African and South American countries, where 50% of the rice is grown under rain-fed systems on poor and problematic soils. With an aim to determine novel alleles for enhanced phosphorus uptake efficiency in wild species germplasm of rice Oryza rufipogon, we investigated phosphorus uptake1 (Pup1) locus with 11 previously reported SSR markers and sequence characterized the phosphorus-starvation tolerance 1 (PSTOL1) gene...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28441955/self-in-compatibility-in-apricot-germplasm-is-controlled-by-two-major-loci-s-and-m
#3
Juan Vicente Muñoz-Sanz, Elena Zuriaga, Inmaculada López, María L Badenes, Carlos Romero
BACKGROUND: Apricot (Prunus armeniaca L.) exhibits a gametophytic self-incompatibility (GSI) system and it is mostly considered as a self-incompatible species though numerous self-compatible exceptions occur. These are mainly linked to the mutated S C-haplotype carrying an insertion in the S-locus F-box gene that leads to a truncated protein. However, two S-locus unlinked pollen-part mutations (PPMs) termed m and m' have also been reported to confer self-compatibility (SC) in the apricot cultivars 'Canino' and 'Katy', respectively...
April 26, 2017: BMC Plant Biology
https://www.readbyqxmd.com/read/28440894/chromatin-sumoylation-in-heat-stress-to-protect-pause-and-organise-sumo-stress-response-on-chromatin
#4
REVIEW
Einari A Niskanen, Jorma J Palvimo
Post-translational modifications, e.g. SUMO modifications (SUMOylation), provide a mechanism for swiftly changing a protein's activity. Various stress conditions trigger a SUMO stress response (SSR) - a stress-induced rapid change in the conjugation of SUMO to multiple proteins, which predominantly targets nuclear proteins. The SSR has been postulated to protect stressed cells by preserving the functionality of crucial proteins. However, it is unclear how it exerts its protective functions. Interestingly, heat stress (HS) increases SUMOylation of proteins at active promoters and enhancers...
April 25, 2017: BioEssays: News and Reviews in Molecular, Cellular and Developmental Biology
https://www.readbyqxmd.com/read/28439480/development-of-microsatellite-markers-based-on-expressed-sequence-tags-in-asparagus-cochinchinensis-asparagaceae
#5
Bo-Yun Kim, Han-Sol Park, Jung-Hoon Lee, Myounghai Kwak, Young-Dong Kim
PREMISE OF THE STUDY: Transcriptome-derived simple sequence repeat (SSR) markers were developed in Asparagus cochinchinensis (Asparagaceae). Due to its application in traditional medicine, its wild populations are threatened by over-collection even in protected areas, requiring immediate conservation efforts. METHODS AND RESULTS: Based on transcriptome data of A. cochinchinensis, 96 primer pairs with two to seven alleles per locus were selected for initial validation; of those, 27 primer pairs amplified across all samples, resulting in 15 polymorphic and 12 monomorphic microsatellite markers...
April 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28439479/simple-sequence-repeat-markers-for-k%C3%A4-nuka-kunzea-spp-myrtaceae-present-in-new-zealand
#6
Dagmar F Goeke, Caroline M Mitchell, Claudia Lange, Gary J Houliston
PREMISE OF THE STUDY: We developed simple sequence repeat (SSR) markers to facilitate population genetic studies on kānuka (Kunzea spp.; Myrtaceae). METHODS AND RESULTS: A shotgun sequencing library was constructed from leaf material of K. robusta using a Roche 454 Junior sequencer, and a total of 3174 putative SSR regions were identified. Sixteen polymorphic markers were optimized for multiplex PCR on 10 endemic New Zealand Kunzea species. Each of these loci cross-amplified in all tested species...
April 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28439478/development-of-microsatellite-loci-in-mediterranean-sarsaparilla-smilax-aspera-smilacaceae-using-transcriptome-data
#7
Zhe-Chen Qi, Chao Shen, Yu-Wei Han, Wei Shen, Man Yang, Jinliang Liu, Zong-Suo Liang, Pan Li, Cheng-Xin Fu
PREMISE OF THE STUDY: Although several microsatellite markers of Smilax aspera (Smilacaceae) have been reported in a previous study, due to universality issues in cross-population amplification, we have newly developed microsatellite markers for S. aspera based on transcriptome data to further investigate gene flow and genetic structure of its circum-Mediterranean, East African, and South Asian populations. METHODS AND RESULTS: A total of 4854 simple sequence repeat (SSR) primer pairs were designed from 99,193 contigs acquired from public transcriptome data of S...
April 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28439477/development-and-characterization-of-est-ssr-markers-in-stipa-breviflora-poaceae
#8
Jing Ren, Zhi-Zhen Su, Zhen-Hua Dang, Yu Ding, Pei-Xuan Wang, Jian-Ming Niu
PREMISE OF THE STUDY: Stipa breviflora (Poaceae) is one of the dominant species of the desert steppe in the eastern Eurasian grasslands. Simple sequence repeat (SSR) markers were developed for use in genetic diversity studies of this species. METHODS AND RESULTS: A total of 1954 potentially polymorphic loci were obtained by comparing transcriptome data of eight different S. breviflora individuals. We selected 81 loci to verify polymorphism and 63 loci amplified, of which 21 loci exhibited polymorphism...
April 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28439476/development-and-characterization-of-18-polymorphic-ssr-markers-for-barthea-barthei-melastomataceae
#9
Guilian Huang, Haijun Liu, Hongbin Sun, Ying Liu, Renchao Zhou, Wenbo Liao, Qiang Fan
PREMISE OF THE STUDY: To examine population differentiation, simple sequence repeat (SSR) markers were developed in Barthea barthei, a shrub with a disjunct distribution in the southern mainland of China and Taiwan. METHODS AND RESULTS: We used Illumina HiSeq technology to sequence a genomic library for SSR identification. Twenty-seven SSR loci were developed, of which 18 SSR loci were polymorphic in three populations composed of two varieties of B. barthei. At the population level, the number of alleles ranged from one to seven, and the observed and expected heterozygosity varied from 0 to 0...
April 2017: Applications in Plant Sciences
https://www.readbyqxmd.com/read/28439278/exploration-of-elite-stilbene-synthase-alleles-for-resveratrol-concentration-in-wild-chinese-vitis-spp-and-vitis-cultivars
#10
Xianbo Zheng, Jiangli Shi, Yinmei Yu, Yanlong Shen, Bin Tan, Xia Ye, Jidong Li, Jiancan Feng
Resveratrol contributes to a plant's tolerance of various abiotic and biotic stresses and is highly beneficial to human health. A search for elite alleles affecting resveratrol production was undertaken to find useful grapevine germplasm resources. Resveratrol levels in both berry skins and leaves were determined in 95 grapevine accessions (including 50 wild Chinese grapevine accessions and 45 cultivars) during two consecutive years. Resveratrol contents were higher in berry skins than in leaves and in wild Chinese grapevines than in grapevine cultivars...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28437593/tabula-rasa-in-the-patagonian-channels-the-phylogeography-of-oreobolus-obtusangulus-cyperaceae
#11
Simon Pfanzelt, Dirk C Albach, Klaus Bernhard von Hagen
The extent of the Pleistocene glaciations in the Patagonian Channel region (southwesternmost South America) and their impact on the vegetation there is largely unknown. Whether the regional flora was wiped out completely (tabula rasa) or survived in ice-free pockets (in situ survival) is still an open question. The molecular imprint of either scenario should still be visible in extant populations. Therefore, DNA sequence data of Oreobolus obtusangulus Gaudich. (Cyperaceae) were analyzed. This species is an abundant constitutent of Patagonian cushion peat bogs, one of the Patagonian Channel region's major vegetation types...
April 24, 2017: Molecular Ecology
https://www.readbyqxmd.com/read/28435133/de-novo-comparative-transcriptome-analysis-of-genes-involved-in-fruit-morphology-of-pumpkin-cultivars-with-extreme-size-difference-and-development-of-est-ssr-markers
#12
Aliki Xanthopoulou, Ioannis Ganopoulos, Fotis Psomopoulos, Maria Manioudaki, Theodoros Moysiadis, Aliki Kapazoglou, Maslin Osathanunkul, Sofia Michailidou, Apostolos Kalivas, Athanasios Tsaftaris, Irini Nianiou-Obeidat, Panagiotis Madesis
The genetic basis of fruit size and shape was investigated for the first time in Cucurbita species and genetic loci associated with fruit morphology have been identified. Although extensive genomic resources are available at present for tomato (Solanum lycopersicum), cucumber (Cucumis sativus), melon (Cucumis melo) and watermelon (Citrullus lanatus), genomic databases for Cucurbita species are limited. Recently, our group reported the generation of pumpkin (Cucurbita pepo) transcriptome databases from two contrasting cultivars with extreme fruit sizes...
April 20, 2017: Gene
https://www.readbyqxmd.com/read/28430157/development-of-user-friendly-method-to-distinguish-subspecies-of-the-korean-medicinal-herb-perilla-frutescens-using-multiplex-pcr
#13
Yonguk Kim, Ah-Young Kim, Ara Jo, Hakjoon Choi, Seung-Sik Cho, Chulyung Choi
Perilla (Perilla frutescens) is an economically and culturally important plant in East Asia. Plant breeding between cultivars has enhanced the genetic diversity of perilla overall, but means that functionally diverse subspecies are more difficult to identify and distinguish. In this study, we developed gene-based DNA markers to distinguish between the Korean herbal medicinal perilla varieties. We identified informative simple sequence repeat (SSR) regions on the promoter regions of the Myb-P1 and dihydroflavonol 4-reductase (DFR) genes, as well as a large insertion-deletion (indel) region in the limonene synthase (LS) gene, and developed markers to characterize the distinct subspecies differences (PfMyb-P1pro, PfDFRpro, and PfLS, respectively)...
April 21, 2017: Molecules: a Journal of Synthetic Chemistry and Natural Product Chemistry
https://www.readbyqxmd.com/read/28425904/-testing-is-healthy-timeplay-campaign-evaluation-of-sexual-health-promotion-gamification-intervention-targeting-young-adults
#14
Qinya Zhang, Kim J Huhn, Andy Tan, Rachel E Douglas, Helen Guiyun Li, Michelle Murti, Victoria Lee
OBJECTIVES: The objectives of the study were to 1) describe the implementation of the "Testing is Healthy" campaign in four locations in British Columbia (BC) and 2) report process evaluation indicators for the campaign. PARTICIPANTS: Young adults ages 20-29 years, the age group with the highest reported rates of chlamydia and gonorrhea in BC. SETTINGS: Movie theatres located in Langley, Burnaby, Coquitlam and Surrey, which are communities served by the Fraser Health Authority (FHA) in BC...
April 20, 2017: Canadian Journal of Public Health. Revue Canadienne de Santé Publique
https://www.readbyqxmd.com/read/28423046/genetic-structure-and-isolation-by-altitude-in-rice-landraces-of-yunnan-china-revealed-by-nucleotide-and-microsatellite-marker-polymorphisms
#15
Di Cui, Cuifeng Tang, Jinmei Li, Xinxiang A, Tengqiong Yu, Xiaoding Ma, Enlai Zhang, Yanjie Wang, Guilan Cao, Furong Xu, Luyuan Dai, Longzhi Han, Hee-Jong Koh
Rice landraces, a genetic reservoir for varietal improvement, are developed by farmers through artificial selection during the long-term domestication process. To efficiently conserve, manage, and use such germplasm resources, an understanding of the genetic structure and differentiation of local rice landraces is required. In this study, we analyzed 188 accessions of rice landraces collected from localities across an altitudinal gradient from 425 to 2, 274 m above sea level in Yunnan Province, China using ten target genes and 48 SSR markers...
2017: PloS One
https://www.readbyqxmd.com/read/28422692/safe-screening-rules-for-accelerating-twin-support-vector-machine-classification
#16
Xianli Pan, Zhiji Yang, Yitian Xu, Laisheng Wang
The twin support vector machine (TSVM) is widely used in classification problems, but it is not efficient enough for large-scale data sets. Furthermore, to get the optimal parameter, the exhaustive grid search method is applied to TSVM. It is very time-consuming, especially for multiparameter models. Although many techniques have been presented to solve these problems, all of them always affect the performance of TSVM to some extent. In this paper, we propose a safe screening rule (SSR) for linear-TSVM, and give a modified SSR (MSSR) for nonlinear TSVM, which contains multiple parameters...
April 12, 2017: IEEE Transactions on Neural Networks and Learning Systems
https://www.readbyqxmd.com/read/28421090/comparative-genomics-and-phylogenomics-of-east-asian-tulips-amana-liliaceae
#17
Pan Li, Rui-Sen Lu, Wu-Qin Xu, Tetsuo Ohi-Toma, Min-Qi Cai, Ying-Xiong Qiu, Kenneth M Cameron, Cheng-Xin Fu
The genus Amana Honda (Liliaceae), when it is treated as separate from Tulipa, comprises six perennial herbaceous species that are restricted to China, Japan and the Korean Peninsula. Although all six Amana species have important medicinal and horticultural uses, studies focused on species identification and molecular phylogenetics are few. Here we report the nucleotide sequences of six complete Amana chloroplast (cp) genomes. The cp genomes of Amana range from 150,613 bp to 151,136 bp in length, all including a pair of inverted repeats (25,629-25,859 bp) separated by the large single-copy (81,482-82,218 bp) and small single-copy (17,366-17,465 bp) regions...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28411209/phylogeography-of-the-wild-and-cultivated-stimulant-plant-qat-catha-edulis-celastraceae-in-areas-of-historical-cultivation
#18
Luke R Tembrock, Mark P Simmons, Christopher M Richards, Patrick A Reeves, Ann Reilley, Manuel A Curto, Harald Meimberg, Grace Ngugi, Sebsebe Demissew, Abdul Wali Al Khulaidi, Mansoor Al-Thobhani, Sheron Simpson, Daniel M Varisco
PREMISE OF THE STUDY: Qat (Catha edulis, Celastraceae) is a woody plant species cultivated for its stimulant alkaloids. Qat is important to the economy and culture in large regions of Ethiopia, Kenya, and Yemen. Despite the importance of this species, the wild origins and dispersal of cultivars have only been described in often contradictory historical documents. We examined the wild origins, human-mediated dispersal, and genetic divergence of cultivated qat compared to wild qat. METHODS: We sampled 17 SSR markers and 1561 wild and cultivated individuals across the historical areas of qat cultivation...
April 14, 2017: American Journal of Botany
https://www.readbyqxmd.com/read/28408910/new-hypervariable-ssr-markers-for-diversity-analysis-hybrid-purity-testing-and-trait-mapping-in-pigeonpea-cajanus-cajan-l-millspaugh
#19
Abhishek Bohra, Rintu Jha, Gaurav Pandey, Prakash G Patil, Rachit K Saxena, Indra P Singh, D Singh, R K Mishra, Ankita Mishra, F Singh, Rajeev K Varshney, N P Singh
Draft genome sequence in pigeonpea offers unprecedented opportunities for genomics assisted crop improvement via enabling access to genome-wide genetic markers. In the present study, 421 hypervariable simple sequence repeat (SSR) markers from the pigeonpea genome were screened on a panel of eight pigeonpea genotypes yielding marker validation and polymorphism percentages of 95.24 and 54.11%, respectively. The SSR marker assay uncovered a total of 570 alleles with three as an average number of alleles per marker...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28405778/verification-and-fine-mapping-of-qgw1-05-a-major-qtl-for-grain-weight-in-maize-zea-mays-l
#20
Qiang Zhou, Yongbin Dong, Qingling Shi, Long Zhang, Huanqing Chen, Chunhui Hu, Yuling Li
Grain weight, one of the important factors to determine corn yield, is a typical quantitative inheritance trait. However, the molecular genetic basis of grain weight still remains limited. In our previous researches, a major QTL associated with grain weight, qGW1.05, has been identified between SSR markers umc1601 and umc1754 at bin locus 1.05-1.06 in maize. Here, its genetic and environmental stabiliteis were verified using a BC3F2 population to identify the effect of qGW1.05 on grain weight. Further, qGW1...
April 12, 2017: Molecular Genetics and Genomics: MGG
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