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BMC Plant Biology

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https://www.readbyqxmd.com/read/30236061/evolution-of-alog-gene-family-suggests-various-roles-in-establishing-plant-architecture-of-torenia-fournieri
#1
Wei Xiao, Ziqing Ye, Xinran Yao, Liang He, Yawen Lei, Da Luo, Shihao Su
BACKGROUND: ALOG (Arabidopsis LSH1 and Oryza G1) family with a conserved domain widely exists in plants. A handful of ALOG members have been functionally characterized, suggesting their roles as key developmental regulators. However, the evolutionary scenario of this gene family during the diversification of plant species remains largely unclear. METHODS: Here, we isolated seven ALOG genes from Torenia fournieri and phylogenetically analyzed them with different ALOG members from representative plants in major taxonomic clades...
September 20, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30236058/root-inoculation-with-azotobacter-chroococcum-76a-enhances-tomato-plants-adaptation-to-salt-stress-under-low-n-conditions
#2
Michael James Van Oosten, Emilio Di Stasio, Valerio Cirillo, Silvia Silletti, Valeria Ventorino, Olimpia Pepe, Giampaolo Raimondi, Albino Maggio
BACKGROUND: The emerging roles of rhizobacteria in improving plant nutrition and stress protection have great potential for sustainable use in saline soils. We evaluated the function of the salt-tolerant strain Azotobacter chroococcum 76A as stress protectant in an important horticultural crop, tomato. Specifically we hypothesized that treatment of tomato plants with A. chroococcum 76A could improve plant performance under salinity stress and sub-optimal nutrient regimen. RESULTS: Inoculation of Micro Tom tomato plants with A...
September 20, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30236054/the-sucrose-non-fermenting-1-related-protein-kinases-sapk1-and-sapk2-function-collaboratively-as-positive-regulators-of-salt-stress-tolerance-in-rice
#3
Dengji Lou, Houping Wang, Diqiu Yu
BACKGROUND: The sucrose non-fermenting-1-related protein kinase 2 family (SnRK2s) unifies different abiotic stress signals in plants. To date, the functions of two rice SnRK2s, osmotic stress/ABA-activated protein kinase 1 (SAPK1) and SAPK2, have been unknown. We investigated their roles in response to salt stress by generating loss-of-function lines using the CRISPR/Cas9 system and by overexpressing these proteins in transgenic rice plants. RESULTS: Expression profiling revealed that SAPK1 and SAPK2 expression were strongly induced by drought, NaCl, and PEG treatment, but not by ABA...
September 20, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30231862/exploring-transcription-factors-reveals-crucial-members-and-regulatory-networks-involved-in-different-abiotic-stresses-in-brassica-napus-l
#4
Pei Wang, Cuiling Yang, Hao Chen, Longhai Luo, Qiuli Leng, Shicong Li, Zujing Han, Xinchun Li, Chunpeng Song, Xiao Zhang, Daojie Wang
BACKGROUND: Brassica napus (B. napus) encompasses diverse transcription factors (TFs), but thorough identification and characterization of TF families, as well as their transcriptional responsiveness to multifarious stresses are still not clear. RESULTS: Totally 2167 TFs belonging to five families were genome-widely identified in B. napus, including 518 BnAP2/EREBPs, 252 BnbZIPs, 721 BnMYBs, 398 BnNACs and 278 BnWRKYs, which contained some novel members in comparison with existing results...
September 19, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30231856/transcriptome-dynamics-of-rooting-zone-and-aboveground-parts-of-cuttings-during-adventitious-root-formation-in-cryptomeria-japonica-d-don
#5
Yuki Fukuda, Tomonori Hirao, Kentaro Mishima, Mineko Ohira, Yuichiro Hiraoka, Makoto Takahashi, Atsushi Watanabe
BACKGROUND: Adventitious root formation is an essential physiological process for successful propagation of cuttings in various plant species. Because coniferous species are highly heterozygous, propagation of cuttings is of great practical use in breeding. Although various factors influence adventitious root formation, little is known of the associated regulatory mechanisms. Whereas adventitious roots generally form from the base of cuttings, this process is accompanied by physiological changes in leaves, which supply assimilates and metabolites...
September 19, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30231853/agriseqdb-an-online-rna-seq-database-for-functional-studies-of-agriculturally-relevant-plant-species
#6
Andrew J Robinson, Muluneh Tamiru, Rachel Salby, Clayton Bolitho, Andrew Williams, Simon Huggard, Eva Fisch, Kathryn Unsworth, James Whelan, Mathew G Lewsey
BACKGROUND: The genome-wide expression profile of genes in different tissues/cell types and developmental stages is a vital component of many functional genomic studies. Transcriptome data obtained by RNA-sequencing (RNA-Seq) is often deposited in public databases that are made available via data portals. Data visualization is one of the first steps in assessment and hypothesis generation. However, these databases do not typically include visualization tools and establishing one is not trivial for users who are not computational experts...
September 19, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30227850/the-kinome-of-pineapple-catalog-and-insights-into-functions-in-crassulacean-acid-metabolism-plants
#7
Kaikai Zhu, Hui Liu, Xinlu Chen, Qunkang Cheng, Zong-Ming Max Cheng
BACKGROUND: Crassulacean acid metabolism (CAM) plants use water 20-80% more efficiently by shifting stomata opening and primary CO2 uptake and fixation to the nighttime. Protein kinases (PKs) play pivotal roles in this biological process. However, few PKs have been functionally analyzed precisely due to their abundance and potential functional redundancy (caused by numerous gene duplications). RESULTS: In this study, we systematically identified a total of 758 predicted PK genes in the genome of a CAM plant, pineapple (Ananas comosus)...
September 18, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30223777/chip-seq-reveals-that-qsmyb1-directly-targets-genes-involved-in-lignin-and-suberin-biosynthesis-pathways-in-cork-oak-quercus-suber
#8
Tiago Capote, Pedro Barbosa, Ana Usié, António Marcos Ramos, Vera Inácio, Ricardo Ordás, Sónia Gonçalves, Leonor Morais-Cecílio
BACKGROUND: Gene activity is largely controlled by transcriptional regulation through the action of transcription factors and other regulators. QsMYB1 is a member of the R2R3-MYB transcription factor family related to secondary growth, and in particular, with the cork development process. In order to identify the putative gene targets of QsMYB1 across the cork oak genome we developed a ChIP-Seq strategy. RESULTS: Results provide direct evidence that QsMY1B targets genes encoding for enzymes involved in the lignin and suberin pathways as well as gene encoding for ABCG transporters and LTPs implicated in the transport of monomeric suberin units across the cellular membrane...
September 17, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30223774/molecular-genetic-and-biochemical-evidence-for-adaptive-evolution-of-leaf-abaxial-epicuticular-wax-crystals-in-the-genus-lithocarpus-fagaceae
#9
Chih-Kai Yang, Bing-Hong Huang, Shao-Wei Ho, Meng-Yuan Huang, Jenn-Che Wang, Jian Gao, Pei-Chun Liao
BACKGROUND: Leaf epicuticular wax is an important functional trait for physiological regulation and pathogen defense. This study tests how selective pressure may have forced the trait of leaf abaxial epicuticular wax crystals (LAEWC) and whether the presence/absence of LAEWC is associated with other ecophysiological traits. Scanning Electron Microscopy was conducted to check for LAEWC in different Lithocarpus species. Four wax biosynthesis related genes, including two wax backbone genes ECERIFERUM 1 (CER1) and CER3, one regulatory gene CER7 and one transport gene CER5, were cloned and sequenced...
September 17, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30223770/comparative-metabolomics-reveals-the-metabolic-variations-between-two-endangered-taxus-species-t-fuana-and-t-yunnanensis-in-the-himalayas
#10
Chunna Yu, Xiujun Luo, Xiaori Zhan, Juan Hao, Lei Zhang, Yao-Bin L Song, Chenjia Shen, Ming Dong
BACKGROUND: Plants of the genus Taxus have attracted much attention owing to the natural product taxol, a successful anti-cancer drug. T. fuana and T. yunnanensis are two endangered Taxus species mainly distributed in the Himalayas. In our study, an untargeted metabolomics approach integrated with a targeted UPLC-MS/MS method was applied to examine the metabolic variations between these two Taxus species growing in different environments. RESULTS: The level of taxol in T...
September 17, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30219055/small-rna-and-degradome-sequencing-used-to-elucidate-the-basis-of-tolerance-to-salinity-and-alkalinity-in-wheat
#11
Huanan Han, Qi Wang, Lin Wei, Yu Liang, Jiulan Dai, Guangmin Xia, Shuwei Liu
BACKGROUND: Soil salinity and/or alkalinity impose a major constraint over crop yield and quality. An understanding of the molecular basis of the plant response to these stresses could inform the breeding of more tolerant varieties. The bread wheat cultivar SR3 exhibits an enhanced level of salinity tolerance, while SR4 is distinguished by its superior tolerance of alkalinity. RESULTS: The small RNA and degradome sequencing was used to explore the miRNAs and corresponding targets associated with the superior stress tolerance of the SR lines...
September 15, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30217178/molecular-characterization-of-the-genome-wide-bor-transporter-gene-family-and-genetic-analysis-of-bnac04-bor1-1c-in-brassica-napus
#12
Haifei Chen, Quan Zhang, Mingliang He, Sheliang Wang, Lei Shi, Fangsen Xu
BACKGROUND: Boron (B) deficiency is an agricultural problem that causes significant losses of crop yield in many areas of the world. However, systematic analysis of BOR family genes for B transport in rapeseed is still lacking. We aimed to identify and characterize BOR transporters in Brassica napus and the potential role of these transporters in B homeostasis in response to B deficiency. RESULTS: Here, we identified 20 BOR transporters from the Brassica napus genome, which were classified into six distinct groups that represent clear orthologous relationships to their family members in Arabidopsis...
September 14, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30217175/high-cryptic-species-diversity-is-revealed-by-genome-wide-polymorphisms-in-a-wild-relative-of-banana-musa-itinerans-and-implications-for-its-conservation-in-subtropical-china
#13
Wei Wu, Wei-Lun Ng, Jun-Xin Yang, Wei-Ming Li, Xue-Jun Ge
BACKGROUND: Species delimitation is a challenging but essential task in conservation biology. Morphologically similar species are sometimes difficult to recognize even after examination by experienced taxonomists. With the advent of molecular approaches in species delimitation, this hidden diversity has received much recent attention. In addition to DNA barcoding approaches, analytical tools based on the multi-species coalescence model (MSC) have been developed for species delimitation...
September 14, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30208944/functional-study-of-chs-gene-family-members-in-citrus-revealed-a-novel-chs-gene-affecting-the-production-of-flavonoids
#14
Zhibin Wang, Qibin Yu, Wanxia Shen, Choaa A El Mohtar, Xiaochun Zhao, Fredrick G Gmitter
BACKGROUND: Citrus flavonoids are considered as the important secondary metabolites because of their biological and pharmacological activities. Chalcone synthase (CHS) is a key enzyme that catalyses the first committed step in the flavonoid biosynthetic pathway. CHS genes have been isolated and characterized in many plants. Previous studies indicated that CHS is a gene superfamily. In citrus, the number of CHS members and their contribution to the production of flavonoids remains a mystery...
September 12, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30208853/low-ph-responsive-proteins-revealed-by-a-2-de-based-ms-approach-and-related-physiological-responses-in-citrus-leaves
#15
Jiang Zhang, Qiang Li, Yi-Ping Qi, Wei-Lin Huang, Lin-Tong Yang, Ning-Wei Lai, Xin Ye, Li-Song Chen
BACKGROUND: Rare data are available on the molecular responses of higher plants to low pH. Seedlings of 'Sour pummelo' (Citrus grandis) and 'Xuegan' (Citrus sinensis) were treated daily with nutrient solution at a pH of 2.5, 3, or 6 (control) for nine months. Thereafter, we first used 2-dimensional electrophoresis (2-DE) to investigate low pH-responsive proteins in Citrus leaves. Meanwhile, we examined low pH-effects on leaf gas exchange, carbohydrates, ascorbate, dehydroascorbate and malondialdehyde...
September 12, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30208842/comparative-proteomic-analysis-of-maize-zea-mays-l-seedlings-under-rice-black-streaked-dwarf-virus-infection
#16
Runqing Yue, Caixia Lu, Xiaohua Han, Shulei Guo, Shufeng Yan, Lu Liu, Xiaolei Fu, Nana Chen, Xinhai Guo, Haifeng Chi, Shuanggui Tie
BACKGROUND: Maize rough dwarf disease (MRDD) is a severe disease that has been occurring frequently in southern China and many other Asian countries. MRDD is caused by the infection of Rice black streaked dwarf virus (RBSDV) and leads to significant economic losses in maize production. To well understand the destructive effects of RBSDV infection on maize growth, comparative proteomic analyses of maize seedlings under RBSDV infection was performed using an integrated approach involving LC-MS/MS and Tandem Mass Tag (TMT) labeling...
September 12, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30208841/comparative-transcriptome-analysis-reveals-that-tricarboxylic-acid-cycle-related-genes-are-associated-with-maize-cms-c-fertility-restoration
#17
Yongming Liu, Gui Wei, Yuanyan Xia, Xiaowei Liu, Jin Tang, Yanli Lu, Hai Lan, Suzhi Zhang, Chuan Li, Moju Cao
BACKGROUND: C-type cytoplasmic male sterility (CMS-C) is one of the three major types of cytoplasmic male sterility (CMS) in maize. Rf4 is a dominant restorer gene for CMS-C and has great value in hybrid maize breeding, but little information concerning its functional mechanism is known. RESULTS: To reveal the functional mechanism of Rf4, we developed a pair of maize near-isogenic lines (NILs) for the Rf4 locus, which included a NIL_rf4 male-sterile line and a NIL_Rf4 male fertility-restored line...
September 12, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30208840/the-caseinolytic-protease-complex-component-clpc1-in-arabidopsis-maintains-proteome-and-rna-homeostasis-in-chloroplasts
#18
Shoudong Zhang, Huoming Zhang, Yiji Xia, Liming Xiong
BACKGROUND: Homeostasis of the proteome is critical to the development of chloroplasts and also affects the expression of certain nuclear genes. CLPC1 facilitates the translocation of chloroplast pre-proteins and mediates protein degradation. RESULTS: We found that proteins involved in photosynthesis are dramatically decreased in their abundance in the clpc1 mutant, whereas many proteins involved in chloroplast transcription and translation were increased in the mutant...
September 12, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30200885/root-and-leaf-metabolite-profiles-analysis-reveals-the-adaptive-strategies-to-low-potassium-stress-in-barley
#19
Jianbin Zeng, Xiaoyan Quan, Xiaoyan He, Shengguan Cai, Zhilan Ye, Guang Chen, Guoping Zhang
BACKGROUND: Potassium (K) deficiency in arable land is one of the most important factors affecting crop productivity. Development of low K (LK) tolerant crop cultivars is regarded as a best economic and effective approach for solving the issue of LK. In previous studies, we found a wider variation of LK tolerance in the Tibetan wild barley accessions than cultivated barley. However, the mechanism of LK tolerance in wild barley is still elusive. RESULTS: In this study, two wild barley genotypes (XZ153, LK tolerant and XZ141, LK sensitive) and one cultivar (LuDaoMai, LK tolerant) was used to investigate metabolome changes in response to LK stress...
September 10, 2018: BMC Plant Biology
https://www.readbyqxmd.com/read/30200872/the-p450-gene-cyp749a16-is-required-for-tolerance-to-the-sulfonylurea-herbicide-trifloxysulfuron-sodium-in-cotton-gossypium-hirsutum-l
#20
Gregory N Thyssen, Marina Naoumkina, Jack C McCarty, Johnie N Jenkins, Christopher Florane, Ping Li, David D Fang
BACKGROUND: Weed management is critical to global crop production and is complicated by rapidly evolving herbicide resistance in weeds. New sources of herbicide resistance are needed for crop plants so that applied herbicides can be rotated or combined to thwart the evolution of resistant weeds. The diverse family of cytochrome P450 proteins has been suggested to be a source of detoxifying herbicide metabolism in both weed and crop plants, and greater understanding of these genes will offer avenues for crop improvement and novel weed management practices...
September 10, 2018: BMC Plant Biology
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