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Plant functional traits

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https://www.readbyqxmd.com/read/28922761/rapid-mapping-and-cloning-of-the-virescent-1-gene-in-cotton-by-bulked-segregant-analysis-next-generation-sequencing-and-virus-induced-gene-silencing-strategies
#1
Jiankun Zhu, Jiedan Chen, Fengkai Gao, Chenyu Xu, Huaitong Wu, Kun Chen, Zhanfeng Si, Hu Yan, Tianzhen Zhang
Map-based gene cloning is a vital strategy for the identification of the quantitative trait loci or genes underlying important agronomic traits. The conventional map-based cloning method is powerful but generally time-consuming and labor-intensive. In this context, we introduce an improved bulked segregant analysis method in combination with a virus-induced gene silencing (VIGS) strategy for rapid and reliable gene mapping, identification and functional verification. This method was applied to a multiple recessive marker line of upland cotton, Texas 582 (T582), and identified unique genomic positions harboring mutant loci, showing the reliability and efficacy of this method...
July 10, 2017: Journal of Experimental Botany
https://www.readbyqxmd.com/read/28922760/the-roles-of-pleiotropy-and-close-linkage-as-revealed-by-association-mapping-of-yield-and-correlated-traits-of-wheat-triticum-aestivum-l
#2
Albert W Schulthess, Jochen C Reif, Jie Ling, Jörg Plieske, Sonja Kollers, Erhard Ebmeyer, Viktor Korzun, Odile Argillier, Gunther Stiewe, Martin W Ganal, Marion S Röder, Yong Jiang
Grain yield (GY) of bread wheat (Triticum aestivum L.) is quantitatively inherited. Correlated GY-syndrome traits such as plant height (PH), heading date (HD), thousand grain weight (TGW), test weight (TW), grains per ear (GPE), and ear weight (EW) influence GY. Most quantitative genetics studies assessed the multiple-trait (MT) complex of GY-syndrome using single-trait approaches, and little is known about its underlying pleiotropic architecture. We investigated the pleiotropic architecture of wheat GY-syndrome through MT association mapping (MT-GWAS) using 372 varieties phenotyped in up to eight environments and genotyped with 18 832 single nucleotide polymorphisms plus 24 polymorphic functional markers...
July 10, 2017: Journal of Experimental Botany
https://www.readbyqxmd.com/read/28921844/functional-traits-determine-tree-growth-and-ecosystem-productivity-of-a-tropical-montane-forest-insights-from-a-long-term-nutrient-manipulation-experiment
#3
Selene Báez, Jürgen Homeier
Trait response-effects are critical to forecast community structure and biomass production in highly diverse tropical forests. Ecological theory and few observation studies indicate that trees with acquisitive functional traits would respond more strongly to higher resource availability than those with conservative traits. We assessed how long-term tree growth in experimental nutrient addition plots (N, P and N+P) varied as a function of morphological traits, tree size and species identity. We also evaluated how trait-based responses affected stand scale biomass production considering the community structure...
September 18, 2017: Global Change Biology
https://www.readbyqxmd.com/read/28919077/engineering-quantitative-trait-variation-for-crop-improvement-by-genome-editing
#4
Daniel Rodríguez-Leal, Zachary H Lemmon, Jarrett Man, Madelaine E Bartlett, Zachary B Lippman
Major advances in crop yields are needed in the coming decades. However, plant breeding is currently limited by incremental improvements in quantitative traits that often rely on laborious selection of rare naturally occurring mutations in gene-regulatory regions. Here, we demonstrate that CRISPR/Cas9 genome editing of promoters generates diverse cis-regulatory alleles that provide beneficial quantitative variation for breeding. We devised a simple genetic scheme, which exploits trans-generational heritability of Cas9 activity in heterozygous loss-of-function mutant backgrounds, to rapidly evaluate the phenotypic impact of numerous promoter variants for genes regulating three major productivity traits in tomato: fruit size, inflorescence branching, and plant architecture...
September 13, 2017: Cell
https://www.readbyqxmd.com/read/28916814/expression-of-brown-midrib-in-a-spontaneous-sorghum-mutant-is-linked-to-a-5-utr-deletion-in-lignin-biosynthesis-gene-sbcad2
#5
Huang Li, Yinghua Huang
Brown midrib (bmr) mutants in sorghum (Sorghum bicolor (L.) Moench) and several other C4 grasses are associated with reduced lignin concentration, altered lignin composition and improved cell wall digestibility, which are desirable properties in biomass development for the emerging lignocellulosic biofuel industry. Studying bmr mutants has considerably expanded our understanding of the molecular basis underlying lignin biosynthesis and perturbation in grasses. In this study, we performed quantitative trait locus (QTL) analysis, identified and cloned a novel cinnamyl alcohol dehydrogenase allele (SbCAD2) that has an 8-bp deletion in its 5'-untranslated region (UTR), conferring the spontaneous brown midrib trait and lignin reduction in the sorghum germplasm line PI 595743...
September 15, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28914360/adaptive-variation-in-vein-placement-underpins-diversity-in-a-major-neotropical-plant-radiation
#6
Jamie Males
Vein placement has been hypothesised to control leaf hydraulic properties, but the ecophysiological significance of variation in vein placement in the angiosperms has remained poorly understood. The highly diverse Neotropical Bromeliaceae offers an excellent system for exploring understudied relationships between leaf vein placement, physiological functions, and species ecology. To test key hypotheses regarding the links between vein placement, functional type divergences, and ecological diversity in the Bromeliaceae, I characterised the ratio of interveinal distance (IVD) to vein-epidermis distance (VED) in 376 species, representing all major functional types and 10% of the species diversity in the family, as well as bioclimatic properties and key leaf traits for subsets of species...
September 15, 2017: Oecologia
https://www.readbyqxmd.com/read/28905001/genome-enabled-insights-into-the-ecophysiology-of-the-comammox-bacterium-candidatus-nitrospira-nitrosa
#7
Pamela Y Camejo, Jorge Santo Domingo, Katherine D McMahon, Daniel R Noguera
The recently discovered comammox bacteria have the potential to completely oxidize ammonia to nitrate. These microorganisms are part of the Nitrospira genus and are present in a variety of environments, including biological nutrient removal (BNR) systems. However, the physiological traits within and between comammox and nitrite-oxidizing bacterium (NOB)-like Nitrospira species have not been analyzed in these ecosystems. In this study, we identified Nitrospira strains dominating the nitrifying community of a sequencing batch reactor (SBR) performing BNR under microaerobic conditions...
September 2017: MSystems
https://www.readbyqxmd.com/read/28903734/transcriptomic-profiling-of-genes-in-matured-dimorphic-seeds-of-euhalophyte-suaeda-salsa
#8
Yange Xu, Yuanqin Zhao, Huimin Duan, Na Sui, Fang Yuan, Jie Song
BACKGROUND: Suaeda salsa (S. salsa) is a euhalophyte with high economic value. S. salsa can produce dimorphic seeds. Brown seeds are more salt tolerant, can germinate quickly and maintain the fitness of the species under high saline conditions. Black seeds are less salt tolerant, may become part of the seed bank and germinate when soil salinity is reduced. Previous reports have mainly focused on the ecophysiological traits of seed germination and production under saline conditions in this species...
September 13, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28900434/contrasting-effects-of-extreme-drought-and-snowmelt-patterns-on-mountain-plants-along-an-elevation-gradient
#9
Sergey Rosbakh, Annette Leingärtner, Bernhard Hoiss, Jochen Krauss, Ingolf Steffan-Dewenter, Peter Poschlod
Despite the evidence that increased frequency and magnitude of extreme climate events (ECE) considerably affect plant performance, there is still a lack of knowledge about how these events affect mountain plant biodiversity and mountain ecosystem functioning. Here, we assessed the short-term (one vegetation period) effects of simulated ECEs [extreme drought (DR), advanced and delayed snowmelt (AD and DE), respectively] on the performance of 42 plant species occurring in the Bavarian Alps (Germany) along an elevational gradient of 600-2000 m a...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28900432/assessing-and-exploiting-functional-diversity-in-germplasm-pools-to-enhance-abiotic-stress-adaptation-and-yield-in-cereals-and-food-legumes
#10
REVIEW
Sangam L Dwivedi, Armin Scheben, David Edwards, Charles Spillane, Rodomiro Ortiz
There is a need to accelerate crop improvement by introducing alleles conferring host plant resistance, abiotic stress adaptation, and high yield potential. Elite cultivars, landraces and wild relatives harbor useful genetic variation that needs to be more easily utilized in plant breeding. We review genome-wide approaches for assessing and identifying alleles associated with desirable agronomic traits in diverse germplasm pools of cereals and legumes. Major quantitative trait loci and single nucleotide polymorphisms (SNPs) associated with desirable agronomic traits have been deployed to enhance crop productivity and resilience...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28895892/a-robotic-platform-for-corn-seedling-morphological-traits-characterization
#11
Hang Lu, Lie Tang, Steven A Whitham, Yu Mei
Crop breeding plays an important role in modern agriculture, improving plant performance, and increasing yield. Identifying the genes that are responsible for beneficial traits greatly facilitates plant breeding efforts for increasing crop production. However, associating genes and their functions with agronomic traits requires researchers to observe, measure, record, and analyze phenotypes of large numbers of plants, a repetitive and error-prone job if performed manually. An automated seedling phenotyping system aimed at replacing manual measurement, reducing sampling time, and increasing the allowable work time is thus highly valuable...
September 12, 2017: Sensors
https://www.readbyqxmd.com/read/28894638/is-there-genetic-variation-in-mycorrhization-of-medicago-truncatula
#12
Dorothée Dreher, Heena Yadav, Sindy Zander, Bettina Hause
Differences in the plant's response among ecotypes or accessions are often used to identify molecular markers for the respective process. In order to analyze genetic diversity of Medicago truncatula in respect to interaction with the arbuscular mycorrhizal (AM) fungus Rhizophagus irregularis, mycorrhizal colonization was evaluated in 32 lines of the nested core collection representing the genetic diversity of the SARDI collection. All studied lines and the reference line Jemalong A17 were inoculated with R...
2017: PeerJ
https://www.readbyqxmd.com/read/28892844/are-optical-indices-good-proxies-of-seasonal-changes-in-carbon-fluxes-and-stress-related-physiological-status-in-a-beech-forest
#13
E Nestola, A Scartazza, D Di Baccio, A Castagna, A Ranieri, M Cammarano, F Mazzenga, G Matteucci, C Calfapietra
This study investigates the functionality of a Mediterranean-mountain beech forest in Central Italy using simultaneous determinations of optical measurements, carbon (C) fluxes, leaf eco-physiological and biochemical traits during two growing seasons (2014-2015). Meteorological variables showed significant differences between the two growing seasons, highlighting a heat stress coupled with a reduced water availability in mid-summer 2015. As a result, a different C sink capacity of the forest was observed between the two years of study, due to the differences in stressful conditions and the related plant physiological status...
September 6, 2017: Science of the Total Environment
https://www.readbyqxmd.com/read/28887691/relationships-among-leaf-functional-traits-litter-traits-and-mass-loss-during-early-phases-of-leaf-litter-decomposition-in-12-woody-plant-species
#14
Jenna M Zukswert, Cindy E Prescott
Litter 'quality' or decomposability has historically been estimated through measuring chemical attributes, such as concentrations of nitrogen or 'lignin'. More recently, foliar functional traits, which may incorporate indications of the physical structures of tissues, have been found to correlate with litter mass loss rates. However, these traits may not be adequate to predict early rates of mass loss, in which two factors are crucial: the amount of material quickly lost through leaching, and the ease of access of decomposer organisms to the more labile tissues in the interior of the litter...
September 8, 2017: Oecologia
https://www.readbyqxmd.com/read/28887587/a-deletion-of-the-gene-encoding-amino-aldehyde-dehydrogenase-enhances-the-pandan-like-aroma-of-winter-melon-benincasa-hispida-and-is-a-functional-marker-for-the-development-of-the-aroma
#15
Saowalak Ruangnam, Samart Wanchana, Nongnat Phoka, Chatree Saeansuk, Sugunya Mahatheeranont, Simon Jan de Hoop, Theerayut Toojinda, Apichart Vanavichit, Siwaret Arikit
The gene conferring a "pandan-like" aroma of winter melon was identified. The sequence variation (804-bp deletion) found in the gene was used as the target for functional marker development. Winter melon (Benincasa hispida), a member of the Cucurbitaceae family, is a commonly consumed vegetable in Asian countries that is popular for its nutritional and medicinal value. A "pandan-like" aroma, which is economically important in crops including rice and soybean, is rarely found in most commercial varieties of winter melon, but is present in some landraces...
September 8, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/28887557/identification-of-purple-acid-phosphatases-in-chickpea-and-potential-roles-of-capap7-in-seed-phytate-accumulation
#16
Jyoti Bhadouria, Ajit Pal Singh, Poonam Mehra, Lokesh Verma, Rishi Srivastawa, Swarup K Parida, Jitender Giri
Purple acid phosphatases (PAPs) play important roles in phosphate (Pi) acquisition and utilization. These PAPs hydrolyze organic Phosphorus (P) containing compounds in rhizosphere as well as inside the plant cell. However, roles of PAPs in one of the most widely cultivated legumes, chickpea (Cicer arietnum L.), have not been unraveled so far. In the present study, we identified 25 putative PAPs in chickpea (CaPAPs) which possess functional PAP motifs and domains. Differential regulation of CaPAPs under different nutrient deficiencies revealed their roles under multiple nutrient stresses including Pi deficiency...
September 8, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28887328/experimental-evolution-in-photoautotrophic-microorganisms-as-a-means-of-enhancing-chloroplast-functions
#17
REVIEW
Dario Leister
The term 'experimental evolution' refers to short-term evolutionary experiments with microorganisms under controlled conditions in which selection is expected to occur. In combination with whole-genome sequencing and genetic engineering, the method has become a powerful tool to study evolutionary mechanisms and engineer new microbial variants. It has been most extensively used in the model species Escherichia coli and Saccharomyces cerevisiae, but more recently photosynthetic microorganisms have been subjected to experimental evolution...
September 7, 2017: Essays in Biochemistry
https://www.readbyqxmd.com/read/28883829/genomic-analysis-of-terpene-synthase-family-and-functional-characterization-of-seven-sesquiterpene-synthases-from-citrus-sinensis
#18
Berta Alquézar, Ana Rodríguez, Marcos de la Peña, Leandro Peña
Citrus aroma and flavor, chief traits of fruit quality, are derived from their high content in essential oils of most plant tissues, including leaves, stems, flowers, and fruits. Accumulated in secretory cavities, most components of these oils are volatile terpenes. They contribute to defense against herbivores and pathogens, and perhaps also protect tissues against abiotic stress. In spite of their importance, our understanding of the physiological, biochemical, and genetic regulation of citrus terpene volatiles is still limited...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28883826/efficient-crispr-cas9-mediated-genome-editing-using-a-chimeric-single-guide-rna-molecule
#19
Haroon Butt, Ayman Eid, Zahir Ali, Mohamed A M Atia, Morad M Mokhtar, Norhan Hassan, Ciaran M Lee, Gang Bao, Magdy M Mahfouz
The CRISPR/Cas9 system has been applied in diverse eukaryotic organisms for targeted mutagenesis. However, targeted gene editing is inefficient and requires the simultaneous delivery of a DNA template for homology-directed repair (HDR). Here, we used CRISPR/Cas9 to generate targeted double-strand breaks and to deliver an RNA repair template for HDR in rice (Oryza sativa). We used chimeric single-guide RNA (cgRNA) molecules carrying both sequences for target site specificity (to generate the double-strand breaks) and repair template sequences (to direct HDR), flanked by regions of homology to the target...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/28883825/seed-carotenoid-and-tocochromanol-composition-of-wild-fabaceae-species-is-shaped-by-phylogeny-and-ecological-factors
#20
Beatriz Fernández-Marín, Fátima Míguez, Leire Méndez-Fernández, Agustí Agut, José M Becerril, José I García-Plazaola, Ilse Kranner, Louise Colville
Carotenoids distribution and function in seeds have been very scarcely studied, notwithstanding their pivotal roles in plants that include photosynthesis and phytohormone synthesis, pigmentation, membrane stabilization and antioxidant activity. Their relationship with tocochromanols, whose critical role in maintaining seed viability has already been evidenced, and with chlorophylls, whose retention in mature seed is thought to have negative effects on storability, remain also unexplored. Here, we aimed at elucidating seed carotenoids relationship with tocochromanols and chlorophylls with regard to phylogenetic and ecological traits and at understanding their changes during germination...
2017: Frontiers in Plant Science
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