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Plant Journal: for Cell and Molecular Biology

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https://www.readbyqxmd.com/read/28509419/live-cell-crispr-imaging-in-plants-reveals-dynamic-telomere-movements
#1
Steven Dreissig, Simon Schiml, Patrick Schindele, Oda Weiss, Twan Rutten, Veit Schubert, Evgeny Gladilin, Michael Florian Mette, Holger Puchta, Andreas Houben
Elucidating the spatio-temporal organization of the genome inside the nucleus is imperative to understand the regulation of genes and non-coding sequences during development and environmental changes. Emerging techniques of chromatin imaging promise to bridge the long-standing gap between sequencing studies which reveal genomic information and imaging studies that provide spatial and temporal information of defined genomic regions. Here, we demonstrate such an imaging technique based on two orthologues of the bacterial CRISPR-Cas9 system...
May 16, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28509359/the-dna-translocase-rad5a-acts-independently-of-the-other-main-dna-repair-pathways-and-requires-both-its-atpase-and-ring-domain-for-activity-in-arabidopsis-thaliana
#2
Tobias Klemm, Anja Mannuß, Daniela Kobbe, Alexander Knoll, Oliver Trapp, Annika Dorn, Holger Puchta
Multiple pathways exist to repair DNA damage induced by methylating and cross-linking agents in Arabidopsis thaliana. The SWI2/SNF2 translocase RAD5A, the functional homolog of budding yeast Rad5 that is required for the error-free branch of post replicative repair, plays a surprisingly prominent role in the repair of both kinds of lesions in Arabidopsis. Here we show that both the ATPase domain and the ubiquitination function of the RING domain of the Arabidopsis protein are essential for the cellular response to different forms of DNA damage...
May 16, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28509349/isolation-of-tissues-and-preservation-of-rna-from-intact-germinated-barley-grain
#3
Natalie S Betts, Oliver Berkowitz, Ruijie Liu, Helen M Collins, Birgitte Skadhauge, Christoph Dockter, Rachel A Burton, James Whelan, Geoffrey B Fincher
Isolated barley (Hordeum vulgare L.) aleurone layers have been widely used as a model system for studying gene expression and hormonal regulation in germinating cereal grains. A serious technological limitation of this approach has been the inability to confidently extrapolate conclusions obtained from isolated tissues back to the whole grain, where the co-location of several living and non-living tissues results in complex tissue-tissue interactions and regulatory pathways coordinated across the multiple tissues...
May 16, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28509348/reconstitution-of-the-plant-ubiquitination-cascade-in-bacteria-using-a-synthetic-biology-approach
#4
Yufang Han, Jianhang Sun, Jun Yang, Zhaoyun Tan, Jijing Luo, Dongping Lu
Ubiquitination modulates nearly all aspects of plant life. Here, we reconstituted the Arabidopsis thaliana ubiquitination cascade in Escherichia coli using a synthetic biology approach. In this system, plant proteins are expressed and then immediately participate in ubiquitination reactions within E. coli cells. Additionally, the purification of the individual ubiquitination components prior to setting up the ubiquitination reactions is skipped. To establish the reconstituted system, we co-expressed Arabidopsis ubiquitin (Ub) and ubiquitination substrates with E1, E2 and E3 enzymes in E...
May 16, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28503830/synthetic-ocp-heterodimers-are-photoactive-and-recapitulate-the-fusion-of-two-primitive-carotenoproteins-in-the-evolution-of-cyanobacterial-photoprotection
#5
Sigal Lechno-Yossef, Matthew R Melnicki, Han Bao, Beronda L Montgomery, Cheryl A Kerfeld
The Orange Carotenoid Protein (OCP) governs photoprotection in the majority of cyanobacteria. It is structurally and functionally modular, comprised of a C-terminal regulatory domain (CTD), an N-terminal effector domain (NTD) and a ketocarotenoid; the chromophore spans the two domains in the ground state and translocates fully into the NTD upon illumination. Using both the canonical OCP1 from Fremyella diplosiphon and the presumably more primitive OCP2 paralog from the same organism, we show that an NTD-CTD heterodimer forms when the domains are expressed as separate polypeptides...
May 15, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28502081/simultaneous-modification-of-three-homoeologs-of-taedr1-by-genome-editing-enhances-powdery-mildew-resistance-in-wheat
#6
Yunwei Zhang, Yang Bai, Guangheng Wu, Shenghao Zou, Yongfang Chen, Caixia Gao, Dingzhong Tang
Wheat (Triticum aestivum L.) incurs significant yield losses from powdery mildew, a major fungal disease caused by Blumeria graminis f. sp. tritici, (Bgt). ENHANCED DISEASE RESISTANCE1 (EDR1) plays a negative role in the defense response against powdery mildew in Arabidopsis thaliana; however, the edr1 mutant does not show constitutively activated defense responses. This makes EDR1 an ideal target for approaches using new genome-editing tools to improve powdery mildew resistance. We cloned TaEDR1 from hexaploid wheat and found high similarity among the three homoeologs of EDR1...
May 14, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28500683/induction-of-telomere-mediated-chromosomal-truncation-and-behavior-of-truncated-chromosomes-in-brassica-napus
#7
Xiaohong Yan, Chen Li, Jie Yang, Lijun Wang, Chenghong Jiang, Wenhui Wei
Engineered minichromosomes could be stably inherited and serves as a platform for simultaneously transferring and stably expressing multiple genes. Chromosomal truncation mediated by repeats of telomeric sequence is a promising approach for the generation of minichromosomes. In the present work, direct repetitive sequences of Arabidopsis telomere were used to study telomere-mediated truncation of chromosomes in Brassica napus. Transgenes containing alien Arabidopsis telomere were successfully obtained, and Southern blotting and fluorescence in situ hybridization (FISH) results show that the transgenes successfully resulted in chromosomal truncation in B...
May 13, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28493311/ethqv6-3-is-involved-in-melon-climacteric-fruit-ripening-and-is-encoded-by-a-nac-domain-transcription-factor
#8
Pablo Ríos, Jason Argyris, Juan Vegas, Carmen Leida, Merav Kenigswald, Galil Tzuri, Christelle Troadec, Abdelhafid Bendahmane, Nurit Katzir, Belén Picó, Antonio J Monforte, Jordi Garcia-Mas
Fruit ripening is divided into climacteric and non-climacteric types depending on the presence or absence of a transient rise in respiration rate and the production of autocatalytic ethylene. Melon is ideal for the study of fruit ripening, as both climacteric and non-climacteric varieties exist. Two introgressions of the non-climacteric accession PI 161375, encompassed in the QTLs ETHQB3.5 and ETHQV6.3, into the non-climacteric "Piel de Sapo" background are able to induce climacteric ripening independently...
May 10, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28493303/comprehensive-profiling-of-rhizome-associated-alternative-splicing-and-alternative-polyadenylation-in-moso-bamboo-phyllostachys-edulis
#9
Taotao Wang, Huiyuan Wang, Dawei Cai, Yubang Gao, Hangxiao Zhang, Yongsheng Wang, Chentao Lin, Liuyin Ma, Lianfeng Gu
Moso bamboo (Phyllostachys edulis) represents one of the fastest-spreading plants in the world, due in part to their well-developed rhizomes system. However, the post-transcriptional mechanism has not been comprehensively studied for the development of rhizome system in bamboo. We therefore used a combination of single-molecule long-read sequencing technology and polyadenylation site sequencing (PAS-seq) to re-annotate the bamboo genome, and genome-wide identify alternative splicing (AS) and alternative polyadenylation (APA) in the rhizomes system...
May 10, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28488420/oshkt1-5-mediates-na-exclusion-in-the-vasculature-to-protect-leaf-blades-and-reproductive-tissues-from-salt-toxicity-in-rice
#10
Natsuko I Kobayashi, Naoki Yamaji, Hiroki Yamamoto, Kaoru Okubo, Hiroki Ueno, Alex Costa, Keitaro Tanoi, Hideo Matsumura, Miho Fujii-Kashino, Tomoki Horiuchi, Mohammad Al Nayef, Sergey Shabala, Gynheung An, Jian Feng Ma, Tomoaki Horie
Salt tolerance QTL analysis of rice has revealed that the SKC1 locus, which is involved in a higher K(+) /Na(+) ratio in shoots, corresponds to the OsHKT1;5 gene encoding a Na(+) -selective transporter. However, physiological roles of OsHKT1;5 in rice exposed to salt stress remain elusive and no OsHKT1;5 gene disruption mutants have been characterized to date. In this study, we dissected two independent T-DNA insertional OsHKT1;5 mutants. Measurements of ion contents in tissues and (22) Na(+) tracer imaging experiments showed that loss-of-function of OsHKT1;5 in salt-stressed rice roots triggers massive Na(+) accumulation in shoots...
May 10, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28488328/domestication-rewired-gene-expression-and-nucleotide-diversity-patterns-in-tomato
#11
Christopher Sauvage, Andrea Rau, Charlotte Aichholz, Joël Chadoeuf, Gautier Sarah, Manuel Ruiz, Sylvain Santoni, Mathilde Causse, Jacques David, Sylvain Glémin
Plant domestication has led to considerable phenotypic modifications from wild species to modern varieties. However, although changes in key traits have been well documented, less is known about the underlying molecular mechanisms, such as the reduction of molecular diversity or global gene co-expression patterns. In this study, we used a combination of gene expression and population genetics in wild and crop tomato to decipher the footprints of domestication. We found a set of 1,729 differentially expressed genes (DEG) between the two genetic groups, belonging to 17 clusters of co-expressed DEG, suggesting that domestication affected not only individual genes but also regulatory networks...
May 10, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28482142/the-brassinosteroid-receptor-bri1-can-generate-cgmp-enabling-cgmp-dependent-downstream-signaling
#12
Janet I Wheeler, Aloysius Wong, Claudius Marondedze, Arnoud J Groen, Lusisizwe Kwezi, Lubna Freihat, Jignesh Vyas, Misjudeen A Raji, Helen R Irving, Chris Gehring
The brassinosteroid receptor BRASSINOSTEROID INSENSITIVE 1 (BRI1) is a member of the leucine rich repeat receptor like kinase family. The intracellular kinase domain of BRI1 is an active kinase and also encapsulates a guanylate cyclase catalytic centre. Using liquid chromatography tandem mass spectrometry, we confirmed that the recombinant cytoplasmic domain of BRI1 generates pmol amounts of cGMP per μg protein with a preference for magnesium over manganese as a co-factor. Importantly, a functional BRI1 kinase is essential for optimal cGMP generation...
May 8, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28482127/suppressing-aba-uridine-diphosphate-glucosyltransferase-slugt75c1-alters-fruit-ripening-and-the-stress-response-in-tomato
#13
Yufei Sun, Kai Ji, Bin Liang, Yangwei Du, Li Jiang, Juan Wang, Wenbin Kai, Yushu Zhang, Xiawan Zhai, Pei Chen, Hongqing Wang, Ping Leng
Abscisic acid (ABA) glucose conjugation mediated by uridine diphosphate glucosyltransferases (UGTs) is an important pathway in regulating ABA homeostasis. In the present study, we investigated three tomato SlUGTs that are highly expressed in fruit during ripening, and these SlUGTs were localized to the cytoplasm and cell nucleus. Among these three UGTs, SlUGT75C1 catalyzes the glucosylation of both ABA and IAA in vitro; SlUGT76E1 can only catalyze the conjugation of ABA; and SlUGT73C4 cannot glycosylate either ABA or IAA...
May 8, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28482117/leaf-primordium-size-specifies-leaf-width-and-vein-number-among-row-type-classes-in-barley
#14
Venkatasubbu Thirulogachandar, Ahmad M Alqudah, Ravi Koppolu, Twan Rutten, Andreas Graner, Goetz Hensel, Jochen Kumlehn, Andrea Bräutigam, Nese Sreenivasulu, Thorsten Schnurbusch, Markus Kuhlmann
Exploring genes with impact on yield-related phenotypes is the preceding step to accomplish crop improvements while facing a growing world population. A genome-wide association scan on leaf blade area (LA) in a worldwide spring barley collection (Hordeum vulgare L.), including 125 two- and 93 six-rowed accessions, identified a gene encoding the homeobox transcription factor, Six-rowed spike 1 (VRS1). VRS1 was previously described as a key domestication gene affecting spike development. Its mutation converts two-rowed (wild-type VRS1, only central fertile spikelets) into six-rowed spikes (mutant vrs1, fully developed fertile central and lateral spikelets)...
May 8, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28482115/arabidopsis-thaliana-fla4-functions-as-a-glycan-stabilized-soluble-factor-via-its-carboxy-proximal-fasciclin-1-domain
#15
Hui Xue, Christiane Veit, Lindy Abas, Theodora Tryfona, Daniel Maresch, Martiniano M Ricardi, Jose M Estevez, Richard Strasser, Georg J Seifert
Fasciclin like arabinogalactan proteins (FLAs) are involved in numerous important functions in plants but the relevance of their complex structure to physiological function and cellular fate is unresolved. Using a fully functional fluorescent version of Arabidopsis thaliana FLA4 we show that this protein is localized at the plasma membrane as well as in endosomes and soluble in the apoplast. FLA4 is likely to be GPI-anchored, is highly N-glycosylated and carries two O-glycan epitopes previously associated with AGPs...
May 8, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28440947/regulation-of-the-turnover-of-acc-synthases-by-phytohormones-and-heterodimerization-in-arabidopsis
#16
Han Yong Lee, Yi-Chun Chen, Joseph J Kieber, Gyeong Mee Yoon
Ethylene influences many aspects of plant growth and development. The biosynthesis of ethylene is highly regulated by a variety of internal and external cues. A key target of this regulation is 1-aminocyclopropane-1-carboxylic acid (ACC) synthases (ACS), generally the rate-limiting step in ethylene biosynthesis, which is regulated both transcriptionally and post-transcriptionally. Prior studies have demonstrated that cytokinin and brassinosteroid (BR) act as regulatory inputs to elevate ethylene biosynthesis by increasing the stability of ACS proteins...
April 25, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28440915/unravelling-the-impact-of-lignin-on-cell-wall-mechanics-a-comprehensive-study-on-young-poplar-trees-downregulated-for-cinnamyl-alcohol-dehyrogenase-cad
#17
M Özparpucu, M Rüggeberg, N Gierlinger, I Cesarino, R Vanholme, W Boerjan, I Burgert
Lignin engineering is a promising tool to reduce the energy input and the need of chemical pre-treatments for the efficient conversion of plant biomass into fermentable sugars for downstream applications. At the same time, lignin engineering can offer new insight into structure-function relationships of plant cell walls by combined mechanical, structural and chemical analyses. Here, such a comprehensive approach was applied on poplar trees (Populus tremula x Populus alba) downregulated for CINNAMYL ALCOHOL DEHYDROGENASE (CAD) for gaining insight into the impact of lignin reduction on mechanical properties...
April 25, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28440881/overexpression-of-a-type-i-isopentenyl-pyrophosphate-isomerase-of-artemisia-annua-in-the-cytosol-leads-to-high-arteannuin-b-production-and-artemisinin-increase
#18
Dongming Ma, Gui Li, Fatima Alejos-Gonzalez, Yue Zhu, Zhen Xue, Aimin Wang, Hui Zhang, Xing Li, Hechun Ye, Hong Wang, Benye Liu, De-Yu Xie
We recently characterized a gene-terpene network that is associated with artemisinin biosynthesis in self-pollinated (SP) Artemisia annua, an effective antimalarial plant. We hypothesize that an alteration of gene expression in the network may improve the production of artemisinin and its precursors. In this study, we cloned an isopentenyl pyrophosphate isomerase (IPPI) cDNA, AaIPPI1, from Artemisia annua (Aa). The full-length cDNA encodes a type I IPPI containing a plastid transit peptide (PTP) at its amino terminus...
April 25, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28432803/sequencing-and-functional-validation-of-the-jgi-brachypodium-distachyon-t-dna-collection
#19
Mon Mandy Hsia, Ronan O'Malley, Amy Cartwright, Rita Nieu, Sean P Gordon, Sandra Kelly, Tina G Williams, Delilah F Wood, Yunjun Zhao, Jennifer Bragg, Mark Jordan, Markus Pauly, Joseph R Ecker, Yong Gu, John P Vogel
Due to a large and growing collection of genomic and experimental resources, Brachypodium distachyon has emerged as a powerful experimental model for the grasses. To add to these resources we sequenced 21,165 T-DNA lines, 15,569 of which were produced in this study. This increased the number of unique insertion sites in the T-DNA collection by 21,078 bringing the overall total to 26,112. Thirty seven percent (9,754) of these insertion sites are within genes (including UTRs and introns) and 28% (7,217) are within 500 bp of a gene...
April 22, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/28430402/a-removable-virus-vector-suitable-for-plant-genome-editing
#20
Tetsuya Chujo, Manabu Yoshikawa, Hirotaka Ariga, Masaki Endo, Seiichi Toki, Kazuhiro Ishibashi
Plant genome editing is achieved by expression of sequence-specific nucleases (SSNs). RNA virus vector-mediated expression of SSNs is a promising approach for transgene integration-free targeted mutagenesis in plants. However, removal of virus vectors from infected plants is challenging because no antiviral drugs against plant viruses are available. Here, we developed a removable RNA virus vector that carries the target site of tobacco microRNA398 (miR398) whose expression is induced during shoot regeneration...
April 21, 2017: Plant Journal: for Cell and Molecular Biology
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