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Plant Molecular Biology

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https://www.readbyqxmd.com/read/30006693/coexpression-network-revealing-the-plasticity-and-robustness-of-population-transcriptome-during-the-initial-stage-of-domesticating-energy-crop-miscanthus-lutarioriparius
#1
Shilai Xing, Chengcheng Tao, Zhihong Song, Wei Liu, Juan Yan, Lifang Kang, Cong Lin, Tao Sang
Coexpression network revealing genes with Co-variation Expression pattern (CE) and those with Top rank of Expression fold change (TE) played different roles in responding to new environment of Miscanthus lutarioriparius. Variation in gene expression level, the product of genetic and/or environmental perturbation, determines the robustness-to-plasticity spectrum of a phenotype in plants. Understanding how expression variation of plant population response to a new field is crucial to domesticate energy crops...
July 13, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29959585/concurrent-modifications-in-the-three-homeologs-of-ms45-gene-with-crispr-cas9-lead-to-rapid-generation-of-male-sterile-bread-wheat-triticum-aestivum-l
#2
Manjit Singh, Manish Kumar, Marc C Albertsen, Joshua K Young, A Mark Cigan
Hexaploid bread wheat is not readily amenable to traditional mutagenesis approaches. In this study, we show efficient utilization of CRISPR-Cas system and Next Generation Sequencing for mutant analysis in wheat. Identification and manipulation of male fertility genes in hexaploid bread wheat is important for understanding the molecular basis of pollen development and to obtain novel sources of nuclear genetic male sterility (NGMS). The maize Male sterile 45 (Ms45) gene encodes a strictosidine synthase-like enzyme and has been shown to be required for male fertility...
June 29, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29956114/the-chromatin-remodeler-zmchb101-impacts-expression-of-osmotic-stress-responsive-genes-in-maize
#3
Xiaoming Yu, Xinchao Meng, Yutong Liu, Ning Li, Ai Zhang, Tian-Jing Wang, Lili Jiang, Jinsong Pang, Xinxin Zhao, Xin Qi, Meishan Zhang, Shucai Wang, Bao Liu, Zheng-Yi Xu
The maize chromatin remodeler ZmCHB101 plays an essential role in the osmotic stress response. ZmCHB101 controls nucleosome densities around transcription start sites of essential stress-responsive genes. Drought and osmotic stresses are recurring conditions that severely constrain crop production. Evidence accumulated in the model plant Arabidopsis thaliana suggests that core components of SWI/SNF chromatin remodeling complexes play essential roles in abiotic stress responses. However, how maize SWI/SNF chromatin remodeling complexes function in osmotic and drought stress responses remains unknown...
June 28, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29956113/expansion-and-diversification-of-the-gibberellin-receptor-gibberellin-insensitive-dwarf1-gid1-family-in-land-plants
#4
Rajesh K Gazara, Kanhu C Moharana, Daniel Bellieny-Rabelo, Thiago M Venancio
Here we uncover the major evolutionary events shaping the evolution of the GID1 family of gibberellin receptors in land plants at the sequence, structure and gene expression levels. Gibberellic acid (gibberellin, GA) controls key developmental processes in the life cycle of land plants. By interacting with the GIBBERELLIN INSENSITIVE DWARF1 (GID1) receptor, GA regulates the expression of a wide range of genes through different pathways. Here we report the systematic identification and classification of GID1s in 54 plants genomes, encompassing from bryophytes and lycophytes, to several monocots and eudicots...
June 28, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29951988/fzl-is-primarily-localized-to-the-inner-chloroplast-membrane-however-influences-thylakoid-maintenance
#5
Manali Patil, Stephanie Seifert, Franka Seiler, Jürgen Soll, Serena Schwenkert
FZL is primarily localized to the chloroplast inner envelope and not to the thylakoids, but nevertheless affects the maintenance of thylakoid membranes and photosynthetic protein complexes. The fuzzy-onion-like protein (FZL) is a membrane-bound dynamin-like GTPase located in the chloroplast. We have investigated the chloroplast sub-localization of the endogenous FZL protein and found it to be primarily localized to the inner envelope. Moreover, we observed that mature leaves of fzl mutants start to turn pale, especially in the midvein area of the leaves, 11 days after germination...
June 27, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29946804/correction-to-osbzip71-a-bzip-transcription-factor-confers-salinity-and-drought-tolerance-in-rice
#6
Citao Liu, Bigang Mao, Shujun Ou, Wei Wang, Linchuan Liu, Yanbin Wu, Chengcai Chu, Xiping Wang
Due to an error in combining the figure, an incorrect version of Fig. 9e was presented in the original publication.
June 26, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29946803/integrated-metabolite-profiling-and-transcriptome-analysis-reveals-a-dynamic-metabolic-exchange-between-pollen-tubes-and-the-style-during-fertilization-of-brassica-napus
#7
Helin Tan, Jiahuan Zhang, Xiao Qi, Wenxue Ye, Xingchun Wang, Xiaoe Xiang
In this study, we analyzed the transcriptome and metabolite profile of the style to explore the essential metabolites and specific genes for pollen tube growth of B. napus in vivo. For sexual reproduction of flowering plants, pollen must germinate on the stigma and the pollen tube must grow through the style to deliver the sperm nuclei to the female gametophyte cells. During this process, the rapidly growing pollen tube can cover substantial distances. Despite the clear requirements for energy and cellular building blocks in this process, few studies have examined the role of metabolism in the style for pollen tube elongation...
June 26, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29948659/an-armadillo-domain-protein-participates-in-a-telomerase-interaction-network
#8
Ladislav Dokládal, Eva Benková, David Honys, Nikoleta Dupľáková, Lan-Ying Lee, Stanton B Gelvin, Eva Sýkorová
Arabidopsis and human ARM protein interact with telomerase. Deregulated mRNA levels of DNA repair and ribosomal protein genes in an Arabidopsis arm mutant suggest non-telomeric ARM function. The human homolog ARMC6 interacts with hTRF2. Telomerase maintains telomeres and has proposed non-telomeric functions. We previously identified interaction of the C-terminal domain of Arabidopsis telomerase reverse transcriptase (AtTERT) with an armadillo/β-catenin-like repeat (ARM) containing protein. Here we explore protein-protein interactions of the ARM protein, AtTERT domains, POT1a, TRF-like family and SMH family proteins, and the chromatin remodeling protein CHR19 using bimolecular fluorescence complementation (BiFC), yeast two-hybrid (Y2H) analysis, and co-immunoprecipitation...
June 12, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29948658/genome-wide-analysis-of-the-invertase-gene-family-from-maize
#9
Sheila Juárez-Colunga, Cristal López-González, Norma Cecilia Morales-Elías, Julio Armando Massange-Sánchez, Samuel Trachsel, Axel Tiessen
The recent release of the maize genome (AGPv4) contains annotation errors of invertase genes and therefore the enzymes are bestly curated manually at the protein level in a comprehensible fashion The synthesis, transport and degradation of sucrose are determining factors for biomass allocation and yield of crop plants. Invertase (INV) is a key enzyme of carbon metabolism in both source and sink tissues. Current releases of the maize genome correctly annotates only two vacuolar invertases (ivr1 and ivr2) and four cell wall invertases (incw1, incw2 (mn1), incw3, and incw4)...
June 11, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29948657/high-level-expression-of-the-hiv-entry-inhibitor-griffithsin-from-the-plastid-genome-and-retention-of-biological-activity-in-dried-tobacco-leaves
#10
Matthijs Hoelscher, Nadine Tiller, Audrey Y-H Teh, Guo-Zhang Wu, Julian K-C Ma, Ralph Bock
The potent anti-HIV microbicide griffithsin was expressed to high levels in tobacco chloroplasts, enabling efficient purification from both fresh and dried biomass, thus providing storable material for inexpensive production and scale-up on demand. The global HIV epidemic continues to grow, with 1.8 million new infections occurring per year. In the absence of a cure and an AIDS vaccine, there is a pressing need to prevent new infections in order to curb the disease. Topical microbicides that block viral entry into human cells can potentially prevent HIV infection...
June 9, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29882068/the-bhlh-transcription-factor-ilr3-modulates-multiple-stress-responses-in-arabidopsis
#11
Rozalynne Samira, Baohua Li, Daniel Kliebenstein, Chunying Li, Eric Davis, Jeffrey W Gillikin, Terri A Long
ILR3 and PYE function in a regulatory network that modulates GLS accumulation under iron deficiency. The molecular processes involved in the cross talk between iron (Fe) homeostasis and other metabolic processes in plants are poorly understood. In Arabidopsis thaliana the transcription factor IAA-LEUCINE RESISTANT3 (ILR3) regulates iron deficiency response, aliphatic glucosinolate (GLS) biosynthesis and pathogen response. ILR3 is also known to interact with its homolog, POPEYE (PYE), which also plays a role in Fe response...
June 7, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29869742/roles-of-a-maize-phytochrome-interacting-factors-protein-zmpif3-in-regulation-of-drought-stress-responses-by-controlling-stomatal-closure-in-transgenic-rice-without-yield-penalty
#12
Yong Gao, Meiqin Wu, Menjiao Zhang, Wei Jiang, Enxing Liang, Dongping Zhang, Changquan Zhang, Ning Xiao, Jianmin Chen
ZmPIF3 plays an important role in ABA-mediated regulation of stomatal closure in the control of water loss, and can improve both drought tolerance and did not affect the grain yield in the transgenic rice. Phytochrome-interacting factors (PIFs) are a subfamily of basic helix-loop-helix (bHLH) transcription factors and play important roles in regulating plant growth and development. In our previous study, overexpression of a maize PIFs family gene, ZmPIF3, improved drought tolerance in transgenic rice. In this study, measurement of water loss rate, transpiration rate, stomatal conductance, guard cell aperture, density and length of ZmPIF3 transgenic plants showed that ZmPIF3 can enhance water-saving and drought-resistance by decreasing stomatal aperture and reducing transpiration in both transgenic rice and transgenic Arabidopsis...
June 5, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29869190/anti-freezing-protein-type-iii-strongly-influences-the-expression-of-relevant-genes-in-cryopreserved-potato-shoot-tips
#13
Ji Hyang Seo, Aung Htay Naing, Su Min Jeon, Chang Kil Kim
AFP improved cryopreservation efficiency of potato (Solanum tuberosum cv. Superior) by regulating transcript levels of CBF1 and DHN1. However, the optimal AFP concentration required for strong induction of the genes was dependent on the type of vitrification solution to which the AFP was added: This finding suggests that AFP increased cryopreservation efficiency by transcriptional regulation of these genes, which might protect plant cell membranes from cold stress during cryopreservation. Despite the availability of many studies reporting the benefits of anti-freeze protein III (AFP III) as a cryoprotectant, the role of AFP III in this process has not been well demonstrated using molecular analysis...
June 4, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29850988/de-novo-assembly-of-english-yew-taxus-baccata-transcriptome-and-its-applications-for-intra-and-inter-specific-analyses
#14
Sanna Olsson, Sara Pinosio, Santiago C González-Martínez, Federico Abascal, Maria Mayol, Delphine Grivet, Giovanni G Vendramin
We provide novel genomic resources for Taxus baccata in the form of a reference transcriptome, SSR and SNP markers, and orthologous single-copy genes, useful for phylogenomic and population genomic applications. English yew (T. baccata) is the only European representative of the Taxaceae family, a conifer group originated in the Jurassic period. The wide extent of environmental heterogeneity within the species' range, together with its long presence in Europe, make English yew an ideal species to investigate adaptive evolution in conifers...
May 30, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29761268/towards-a-comprehensive-picture-of-c-to-u-rna-editing-sites-in-angiosperm-mitochondria
#15
Alejandro A Edera, Carolina L Gandini, M Virginia Sanchez-Puerta
Our understanding of the dynamic and evolution of RNA editing in angiosperms is in part limited by the few editing sites identified to date. This study identified 10,217 editing sites from 17 diverse angiosperms. Our analyses confirmed the universality of certain features of RNA editing, and offer new evidence behind the loss of editing sites in angiosperms. RNA editing is a post-transcriptional process that substitutes cytidines (C) for uridines (U) in organellar transcripts of angiosperms. These substitutions mostly take place in mitochondrial messenger RNAs at specific positions called editing sites...
May 14, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29736762/developmental-transcriptome-analysis-of-floral-transition-in-rosa-odorata-var-gigantea
#16
Xuelian Guo, Chao Yu, Le Luo, Huihua Wan, Ni Zhen, Yushu Li, Tangren Cheng, Jia Wang, Huitang Pan, Qixiang Zhang
Expression analyses revealed that floral transition of Rosa odorata var. gigantea is mainly regulated by VRN1, COLs, DELLA and KSN, with contributions by the effects of phytohormone and starch metabolism. Seasonal plants utilize changing environmental and developmental cues to control the transition from vegetative growth to flowering at the correct time of year. This study investigated global gene expression profiles at different developmental stages of Rosa odorata var. gigantea by RNA-sequencing, combined with phenotypic characterization and physiological changes...
May 7, 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29845556/characterization-of-25-full-length-s-rnase-alleles-including-flanking-regions-from-a-pool-of-resequenced-apple-cultivars
#17
Paolo De Franceschi, Luca Bianco, Alessandro Cestaro, Luca Dondini, Riccardo Velasco
Data obtained from Illumina resequencing of 63 apple cultivars were used to obtain full-length S-RNase sequences using a strategy based on both alignment and de novo assembly of reads. The reproductive biology of apple is regulated by the S-RNase-based gametophytic self-incompatibility system, that is genetically controlled by the single, multi-genic and multi-allelic S locus. Resequencing of apple cultivars provided a huge amount of genetic data, that can be aligned to the reference genome in order to characterize variation to a genome-wide level...
June 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29779088/proteomic-analysis-dissects-the-impact-of-nodulation-and-biological-nitrogen-fixation-on-vicia-faba-root-nodule-physiology
#18
Beate Thal, Hans-Peter Braun, Holger Eubel
Symbiotic nitrogen fixation in root nodules of legumes is a highly important biological process which is only poorly understood. Root nodule metabolism differs from that of roots. Differences in root and nodule metabolism are expressed by altered protein abundances and amenable to quantitative proteome analyses. Differences in the proteomes may either be tissue specific and related to the presence of temporary endosymbionts (the bacteroids) or related to nitrogen fixation activity. An experimental setup including WT bacterial strains and strains not able to conduct symbiotic nitrogen fixation as well as root controls enables identification of tissue and nitrogen fixation specific proteins...
June 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29777486/physiological-and-quantitative-proteomic-analyses-unraveling-potassium-deficiency-stress-response-in-alligator-weed-alternanthera-philoxeroides-l-root
#19
Li-Qin Li, Lun Liu, Wei Zhuo, Qian Chen, Sheng Hu, Shuang Peng, Xi-Yao Wang, Yi-Fei Lu, Li-Ming Lu
Physiological and iTRAQ based proteomic analysis provided new insights into potassium deficiency stress response in alligator weed root. Alligator weed (Alternanthera philoxeroides) has a strong ability to adapt to potassium deficiency (LK) stress. Proteomic changes in response to this stress are largely unknown in alligator weed. In this study, we investigated physiological and molecular mechanisms under LK using isobaric tags for relative and absolute quantitation to characterize proteome-level changes in this plant...
June 2018: Plant Molecular Biology
https://www.readbyqxmd.com/read/29777485/co-suppression-of-atmips-demonstrates-cooperation-of-mips1-mips2-and-mips3-in-maintaining-myo-inositol-synthesis
#20
C M Fleet, J Y Yen, E A Hill, G E Gillaspy
Co-suppressed MIPS2 transgenic lines allow bypass of the embryo lethal phenotype of the previously published triple knock-out and demonstrate the effects of MIPS on later stages of development. Regulation of inositol production is of interest broadly for its effects on plant growth and development. The enzyme L-myo-inositol 1-phosphate synthase (MIPS, also known as IPS) isomerizes D-glucose-6-P to D-inositol 3-P, and this is the rate-limiting step in inositol production. In Arabidopsis thaliana, the MIPS enzyme is encoded by three different genes, (AtMIPS1, AtMIPS2 and AtMIPS3), each of which has been shown to produce proteins with biochemically similar properties but differential expression patterns...
June 2018: Plant Molecular Biology
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