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BMC Plant Biology

Kim Nhung Ta, Ngan Giang Khong, Thi Loan Ha, Dieu Thu Nguyen, Duc Chung Mai, Thi Giang Hoang, Thi Phuong Nhung Phung, Isabelle Bourrie, Brigitte Courtois, Thi Thu Hoai Tran, Bach Yen Dinh, Tuan Nghia LA, Nang Vinh DO, Michel Lebrun, Pascal Gantet, Stefan Jouannic
CONTEXT: Yield improvement is an important issue for rice breeding. Panicle architecture is one of the key components of rice yield and exhibits a large diversity. To identify the morphological and genetic determinants of panicle architecture, we performed a detailed phenotypic analysis and a genome-wide association study (GWAS) using an original panel of Vietnamese landraces. RESULTS: Using a newly developed image analysis tool, morphological traits of the panicles were scored over two years: rachis length; primary, secondary and tertiary branch number; average length of primary and secondary branches; average length of internode on rachis and primary branch...
November 14, 2018: BMC Plant Biology
Mohd Affan Baig, Javed Ahmad, Rita Bagheri, Arlene Asthana Ali, Asma Abdulkareem Al-Huqail, Mohamed Mohamed Ibrahim, Mohammad Irfan Qureshi
BACKGROUND: Lead (Pb) and mercury (Hg) are persistent hazardous metals in industrially polluted soils which can be toxic in low quantities. Metal toxicity can cause changes at cellular and molecular level which should be studied for better understanding of tolerance mechanism in plants. Soybean (Glycine max L.) is an important oilseed crop of the world including India. Indian soils growing soybean are often contaminated by Pb and Hg. The aim of this study was to explore how soybean root nodule responds to Pb and Hg through proteomic and ecophysiological alterations in order to enhance tolerance to metal stress...
November 14, 2018: BMC Plant Biology
Ji-Yul Jung, Ji Hoon Ahn, Daniel P Schachtman
BACKGROUND: Nitrogen is an essential nutrient in plants. Despite the importance of nitrogen for plant growth and agricultural productivity, signal transduction pathways in response to nitrate starvation have not been fully elucidated in plants. RESULTS: Gene expression analysis and ectopic expression were used to discover that many CC-type glutaredoxins (ROXYs) are differentially expressed in response to nitrate deprivation. A gain-of-function approach showed that ROXYs may play a role in nutrient sensing through the regulation of chlorophyll content, root hair growth, and transcription of nitrate-related genes such as NRT2...
November 13, 2018: BMC Plant Biology
Hui Song, Zhonglong Guo, Tao Chen, Juan Sun, Guofeng Yang
BACKGROUND: Leucine-rich repeat (LRR)-containing genes are involved in responses to various diseases. Recently, RNA-seq data from A. duranensis after nematode (Meloidogyne arenaria) infection were released. However, the number of LRR-containing genes present in A. duranensis and the response of LRR-containing genes to nematode infection are poorly understood. RESULTS: In this study, we found 509 amino acid sequences containing nine types of LRR domains in A. duranensis...
November 13, 2018: BMC Plant Biology
Amira M I Mourad, Ahmed Sallam, Vikas Belamkar, Ezzat Mahdy, Bahy Bakheit, Atif Abo El-Wafaa, P Stephen Baenziger
BACKGROUND: Common bunt (caused by Tilletia caries and T. foetida) has been considered as a major disease in wheat (Triticum aestivum) following rust (Puccinia spp.) in the Near East and is economically important in the Great Plains, USA. Despite the fact that it can be easily controlled using seed treatment with fungicides, fungicides often cannot or may not be used in organic and low-input fields. Planting common bunt resistant genotypes is an alternative. RESULTS: To identify resistance genes for Nebraska common bunt race, the global set of differential lines were inoculated...
November 13, 2018: BMC Plant Biology
Bárbara Regina Bazzo, Lucas Miguel de Carvalho, Marcelo Falsarella Carazzolle, Gonçalo Amarante Guimarães Pereira, Carlos Augusto Colombo
BACKGROUND: The macaúba palm is a novel feedstock for oil production suitable for multiple uses, including as biodiesel and in the food and cosmetic industries. As an efficient alternative, the macaúba palm has limited genomic resources, particularly expressed sequence tag (EST) markers. We report a comprehensive set of validated EST-simple sequence repeat (SSR) markers by using transcriptome sequencing, its application in genetic diversity analysis and cross transferability in other palm trees with environmental and economic importance...
November 12, 2018: BMC Plant Biology
Matthew P Davey, Ben G Palmer, Emily Armitage, Philippine Vergeer, William E Kunin, F Ian Woodward, W Paul Quick
BACKGROUND: Temperature is one of the most important abiotic factors limiting plant growth and productivity. Many plants exhibit cold acclimation to prepare for the likelihood of freezing as temperatures decrease towards 0 °C. The physiological mechanisms associated with enabling increased tolerance to sub-zero temperatures vary between species and genotypes. Geographically and climatically diverse populations of Arabidopsis lyrata ssp. petraea were examined for their ability to survive, maintain functional photosynthetic parameters and cellular electrolyte leakage integrity after being exposed to sub-zero temperatures...
November 12, 2018: BMC Plant Biology
Tong-Tong Han, Wen-Cheng Liu, Ying-Tang Lu
BACKGROUND: Most ABC transporters are engaged in transport of various compounds, but its subfamily F lacks transmembrane domain essential for chemical transportation. Thus the function of subfamily F remains further elusive. RESULTS: Here, we identified General Control Non-Repressible 20 (GCN20), a member of subfamily F, as new factor for DNA damage repair in root growth. While gcn20-1 mutant had a short primary root with reduced meristem size and cell number, similar primary root lengths were assayed in both wild-type and GCN20::GCN20 gcn20-1 plants, indicating the involvement of GCN20 in root elongation...
November 12, 2018: BMC Plant Biology
Jasmina Kurepa, Timothy E Shull, Sumudu S Karunadasa, Jan A Smalle
BACKGROUND: The phenylpropanoid pathway is responsible for the synthesis of numerous compounds important for plant growth and responses to the environment. In the first committed step of phenylpropanoid biosynthesis, the enzyme phenylalanine ammonia-lyase (PAL) deaminates L-phenylalanine into trans-cinnamic acid that is then converted into p-coumaric acid by cinnamate-4-hydroxylase (C4H). Recent studies showed that the Kelch repeat F-box (KFB) protein family of ubiquitin ligases control phenylpropanoid biosynthesis by promoting the proteolysis of PAL...
November 12, 2018: BMC Plant Biology
Paul Ebersbach, Felix Stehle, Oliver Kayser, Erik Freier
BACKGROUND: Cannabis possesses a rich spectrum of phytochemicals i.e. cannabinoids, terpenes and phenolic compounds of industrial and medicinal interests. Most of these high-value plant products are synthesised in the disk cells and stored in the secretory cavity in glandular trichomes. Conventional trichome analysis was so far based on optical microscopy, electron microscopy or extraction based methods that are either limited to spatial or chemical information. Here we combine both information to obtain the spatial distribution of distinct secondary metabolites on a single-trichome level by applying Coherent anti-Stokes Raman scattering (CARS), a microspectroscopic technique, to trichomes derived from sepals of a drug- and a fibre-type...
November 12, 2018: BMC Plant Biology
Peilong He, Xiaowen Wang, Xiaobo Zhang, Yudong Jiang, Weijiang Tian, Xiaoqiong Zhang, Yangyang Li, Ying Sun, Jia Xie, Jile Ni, Guanghua He, Xianchun Sang
BACKGROUND: The flag leaf of rice (Oryza sativa L.) is an important determinant of plant type characteristics and grain yield. Identification of flag leaf mutants of rice is crucial to elucidate the molecular mechanism of flag-leaf development, and for exploitation of rice germplasm resources. RESULTS: In this study, we describe a mutant designated short and narrow flag leaf 1 (snfl1). Histological analysis showed that the length of epidermal cells and number of longitudinal veins were decreased in the flag leaf of the snfl1 mutant...
November 9, 2018: BMC Plant Biology
Moeko Okada, Kentaro Yoshida, Ryo Nishijima, Asami Michikawa, Yuka Motoi, Kazuhiro Sato, Shigeo Takumi
BACKGROUND: Aegilops umbellulata Zhuk. (2n = 14), a wild diploid wheat relative, has been the source of trait improvement in wheat breeding. Intraspecific genetic variation of Ae. umbellulata, however, has not been well studied and the genomic information in this species is limited. RESULTS: To develop novel genetic markers distributed over all chromosomes of Ae. umbellulata and to evaluate its genetic diversity, we performed RNA sequencing of 12 representative accessions and reconstructed transcripts by de novo assembly of reads for each accession...
November 8, 2018: BMC Plant Biology
Fenglan Zhao, Mengchu Sun, Wanjun Zhang, Chunli Jiang, Jingtong Teng, Wei Sheng, Mingzhi Li, Aimin Zhang, Yongbo Duan, Jianping Xue
BACKGROUND: Isodon amethystoides (Ben-th) Cy Wu et Hsuan is an important traditional medicinal plant endowed with pharmacological properties effective in the treatment of various diseases, including pulmonary tuberculosis. The tetracyclic diterpenoids, Wangzaozins (Wangzaozin A, glaucocalyxin A, glaucocalyxin B), are the major bioactive compounds of I. amethystoides. However, the molecular information about the biosynthesis of these compounds still remains unclear. RESULTS: An examination of the accumulated levels of Wangzaozins in I...
November 8, 2018: BMC Plant Biology
Weichang Hu, Xiuting Hua, Qing Zhang, Jianping Wang, Qiaochu Shen, Xingtan Zhang, Kai Wang, Qingyi Yu, Yann-Rong Lin, Ray Ming, Jisen Zhang
BACKGROUND: The SWEET (Sugars Will Eventually be Exported Transporters) gene family is a recently identified group of sugar transporters that play an indispensable role in sugar efflux, phloem loading, plant-pathogen interaction, nectar secretion, and reproductive tissue development. However, little information on Saccharum SWEET is available for this crop with a complex genetic background. RESULTS: In this study, 22 SWEET genes were identified from Saccharum spontaneum Bacterial Artificial Chromosome libraries sequences...
November 7, 2018: BMC Plant Biology
Yun-Song Lai, Di Shen, Wei Zhang, Xiaohui Zhang, Yang Qiu, Haiping Wang, Xinxin Dou, Sigeng Li, Yuanqi Wu, Jiangping Song, Guanyu Ji, Xixiang Li
BACKGROUND: Cucumbers (Cucumis sativus) are known for their plasticity in sex expression. DNA methylation status determines gene activity but is susceptible to environmental condition changes. Thus, DNA methylation-based epigenetic regulation may at least partially account for the instability of cucumber sex expression. Do temperature and photoperiod that are the two most important environmental factors have equal effect on cucumber sex expression by similar epigenetic regulation mechanism? To answer this question, we did a two-factor experiment of temperature and photoperiod and generated methylome and transcriptome data from cucumber shoot apices...
November 6, 2018: BMC Plant Biology
Esther Yakir, Fei Zhangjun, Noa Sela, Yimin Xu, Vikram Singh, Anurag Dagar, Janak Raj Joshi, Maren Müller, Sergi Munné-Bosch, James J Giovannoni, Julia Vrebalov, Haya Friedman
BACKGROUND: While the role of ethylene in fruit ripening has been widely studied, the contributions of additional plant hormones are less clear. Here we examined the interactions between the transcription factor MaMADS2-box which plays a major role in banana fruit ripening and hormonal regulation. Specifically, we used MaMADS2 repressed lines in transcriptome and hormonal analyses throughout ripening and assessed hormone and gene expression perturbations as compared to wild-type (WT) control fruit...
November 6, 2018: BMC Plant Biology
Junyan Zhu, Xuewen Wang, Qingshan Xu, Shiqi Zhao, Yuling Tai, Chaoling Wei
BACKGROUND: Alternative splicing (AS) regulates mRNA at the post-transcriptional level to change gene function in organisms. However, little is known about the AS and its roles in tea plant (Camellia sinensis), widely cultivated for making a popular beverage tea. RESULTS: In our study, the AS landscape and dynamics were characterized in eight tissues (bud, young leaf, summer mature leaf, winter old leaf, stem, root, flower, fruit) of tea plant by Illumina RNA-Seq and confirmed by Iso-Seq...
November 6, 2018: BMC Plant Biology
Fan Yu, Yongji Huang, Ling Luo, Xueting Li, Jiayun Wu, Rukai Chen, Muqing Zhang, Zuhu Deng
BACKGROUND: Sugarcane has recently attracted increased attention for its potential as a source of bioethanol and methane. However, a narrow genetic base has limited germplasm enhancement of sugarcane. Erianthus arundinaceus is an important wild genetic resource that has many excellent traits for improving cultivated sugarcane via wide hybridization. Species-specific repetitive sequences are useful for identifying genome components and investigating chromosome inheritance in noblization between sugarcane and E...
November 6, 2018: BMC Plant Biology
Guo-Qing Song, Aaron Walworth
BACKGROUND: Many deciduous woody crops require a minimum level of chilling to break dormancy and allow the seasonal growth of vegetative and floral buds. In this study, we report the discovery of an invaluable transgenic event of the blueberry cultivar 'Legacy' (hereafter, Mu-Legacy) for studying chilling-induced flowering in woody plants. Mu-legacy and its progeny provide a unique material to study the unknown mechanism of chilling-mediated flowering in woody plants. RESULTS: Unlike nontransgenic 'Legacy' and plants of 48 other transgenic events, Mu-Legacy plants were able to flower under nonchilling conditions and had early flower bud formation, reduced plant size, and reduced chilling requirement for normal flowering...
November 1, 2018: BMC Plant Biology
Ying Yang, Lei Xuan, Chaoguang Yu, Ziyang Wang, Jianhua Xu, Wencai Fan, Jinbo Guo, Yunlong Yin
BACKGROUND: 'Zhongshanshan' is the general designation for the superior interspecific hybrid clones of Taxodium species, which is widely grown for economic and ecological purposes in southern China. Growth is the priority objective in 'Zhongshanshan' tree improvement. A high-density linkage map is vital to efficiently identify key quantitative trait loci (QTLs) that affect growth. RESULTS: In total, 403.16 Gb of data, containing 2016,336 paired-end reads, was obtained after preprocessing...
November 1, 2018: BMC Plant Biology
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