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https://www.readbyqxmd.com/read/29161754/the-sorghum-bicolor-reference-genome-improved-assembly-gene-annotations-a-transcriptome-atlas-and-signatures-of-genome-organization
#1
Ryan F McCormick, Sandra K Truong, Avinash Sreedasyam, Jerry Jenkins, Shengqiang Shu, David Sims, Megan Kennedy, Mojgan Amirebrahimi, Brock D Weers, Brian McKinley, Ashley Mattison, Daryl T Morishige, Jane Grimwood, Jeremy Schmutz, John E Mullet
Sorghum bicolor is a drought tolerant C4 grass used for production of grain, forage, sugar, and lignocellulosic biomass and a genetic model for C4 grasses due to its relatively small genome (~800 Mbp), diploid genetics, diverse germplasm, and colinearity with other C4 grass genomes. In this study, deep sequencing, genetic linkage analysis, and transcriptome data were used to produce and annotate a high-quality reference genome sequence. Reference genome sequence order was improved, 29.6 Mbp of additional sequence was incorporated, the number of genes annotated increased 24% to 34,211, average gene length and N50 increased, and error frequency was reduced 10-fold to 1 per 100 kbp...
November 21, 2017: Plant Journal: for Cell and Molecular Biology
https://www.readbyqxmd.com/read/29158873/contribution-and-interactions-of-hydroxycinnamic-acids-found-in-bran-and-wholegrain-sorghum-sorghum-bicolor-l-moench-effects-on-the-antioxidant-capacity-and-inhibition-of-human-erythrocyte-hemolysis
#2
Norma Julieta Salazar-López, Gustavo A González-Aguilar, Guadalupe Loarca-Piña, Francisco J Cinco-Moroyoqui, Ofelia Rouzaud-Sández, J Abraham Domínguez-Avila, Maribel Robles-Sánchez
An imbalance between free radicals and antioxidants is known as oxidative stress, and it promotes cellular aging and the development of chronic noncommunicable diseases. The bioactive compounds present in food play an important role in preventing oxidative stress. The aim of this study was to determine the contributions and interactions of the hydroxycinnamic acids found in the bran and whole grain of sorghum and to evaluate their effects on the antioxidant capacity and inhibition of the hemolysis of human erythrocytes...
2017: Oxidative Medicine and Cellular Longevity
https://www.readbyqxmd.com/read/29157286/farmers-perception-of-termites-in-agriculture-production-and-their-indigenous-utilization-in-northwest-benin
#3
Laura Estelle Yêyinou Loko, Azize Orobiyi, Paterne Agre, Alexandre Dansi, Manuele Tamò, Yves Roisin
BACKGROUND: Although termites are considered as agricultural pests, they play an important role in maintaining the ecosystem. Therefore, it matters to investigate the farmers' perception of the impacts of the termites on the agriculture and their indigenous utilization. METHODS: A semi-structured questionnaire was used to interview 94 farmers through 10 villages of Atacora department, in the northwestern region of Benin, to obtain information for the development of successful strategies of termite management and conservation...
November 21, 2017: Journal of Ethnobiology and Ethnomedicine
https://www.readbyqxmd.com/read/29151845/measuring-the-compressive-modulus-of-elasticity-of-pith-filled-plant-stems
#4
Loay A Al-Zube, Daniel J Robertson, Jean N Edwards, Wenhuan Sun, Douglas D Cook
Background: The compressional modulus of elasticity is an important mechanical property for understanding stalk lodging, but this property is rarely available for thin-walled plant stems such as maize and sorghum because excised tissue samples from these plants are highly susceptible to buckling. The purpose of this study was to develop a testing protocol that provides accurate and reliable measurements of the compressive modulus of elasticity of the rind of pith-filled plant stems. The general approach was to relying upon standard methods and practices as much as possible, while developing new techniques as necessary...
2017: Plant Methods
https://www.readbyqxmd.com/read/29151162/enrichment-of-lignocellulose-degrading-microbial-communities-from-natural-and-engineered-methanogenic-environments
#5
Emine Gozde Ozbayram, Sabine Kleinsteuber, Marcell Nikolausz, Bahar Ince, Orhan Ince
The aim of this study was to develop an effective bioaugmentation concept for anaerobic digesters treating lignocellulosic biomass such as straw. For that purpose, lignocellulose-degrading methanogenic communities were enriched on wheat straw from cow and goat rumen fluid as well as from a biogas reactor acclimated to lignocellulosic biomass (sorghum as mono-substrate). The bacterial communities of the enriched cultures and the different inocula were examined by 454 amplicon sequencing of 16S rRNA genes while the methanogenic archaeal communities were analyzed by terminal restriction fragment length polymorphism (T-RFLP) fingerprinting of the mcrA gene...
November 19, 2017: Applied Microbiology and Biotechnology
https://www.readbyqxmd.com/read/29150594/mating-design-and-genetic-structure-of-a-multi-parent-advanced-generation-inter-cross-magic-population-of-sorghum-sorghum-bicolor-l-moench
#6
Patrick O Ongom, Gebisa Ejeta
MAGIC populations are powerful next generation mapping resources. We describe here the mating design and structure of the first MAGIC population in sorghum and test its utility for mapping. The population was developed by intercrossing 19 diverse founder lines, through a series of paired crosses with a genetic male sterile source, followed by 10 generations of random mating. At the final stage of random mating, one thousand random fertile plants in the population were identified and subjected to six generations of selfing to produce 1000 immortal MAGIC inbred lines...
November 17, 2017: G3: Genes—Genomes—Genetics
https://www.readbyqxmd.com/read/29147973/co-variation-of-bacterial-and-fungal-communities-in-different-sorghum-cultivars-and-growth-stages-is-soil-dependent
#7
Thiago R Schlemper, Johannes A van Veen, Eiko E Kuramae
Rhizosphere microbial community composition can be influenced by different biotic and abiotic factors. We investigated the composition and co-variation of rhizosphere bacterial and fungal communities from two sorghum genotypes (BRS330 and SRN-39) in three different plant growth stages (emergence of the second leaf, (day10), vegetative to reproductive differentiation point (day 35), and at the last visible emerged leaf (day 50)) in two different soil types, Clue field (CF) and Vredepeel (VD). We observed that either bacterial or fungal community had its composition stronger influenced by soil followed by plant growth stage and cultivar...
November 16, 2017: Microbial Ecology
https://www.readbyqxmd.com/read/29147737/genetic-dissection-of-early-season-cold-tolerance-in-sorghum-genome-wide-association-studies-for-seedling-emergence-and-survival-under-field-and-controlled-environment-conditions
#8
Sebastian Parra-Londono, Karin Fiedler, Mareike Kavka, Birgit Samans, Silke Wieckhorst, Arndt Zacharias, Ralf Uptmoor
A QTL on sorghum chromosome SBI-06 putatively improves field emergence under low-temperature conditions. Low temperatures decisively limit seedling emergence and vigor during early growth of sorghum and, thus, strongly impair geographical expansion. To broaden sorghum cultivation to temperate regions, the establishment of cold-tolerant genotypes is a prioritized breeding goal. The present study aims at the quantification of seedling emergence and survival under chilling temperatures and the detection of marker-trait associations controlling temperature-related seedling establishment...
November 16, 2017: TAG. Theoretical and Applied Genetics. Theoretische und Angewandte Genetik
https://www.readbyqxmd.com/read/29145390/morphological-and-molecular-characterization-of-brazilian-populations-of-diatraea-saccharalis-fabricius-1794-lepidoptera-crambidae-and-the-evolutionary-relationship-among-species-of-diatraea-guilding
#9
Fabricio J B Francischini, Jaqueline Bueno de Campos, Alessandro Alves-Pereira, João Paulo Gomes Viana, Christopher C Grinter, Steven J Clough, Maria I Zucchi
The sugarcane borer or corn stalk borer, Diatraea Guilding is polyphagous insect pest of many important crops such as corn, sorghum and sugarcane. Losses arising from the attack of Diatraea species have been a serious problem, which may cause loss in sugarcane production around 0.25% in sugar, 0.20% in alcohol and 0.77% of body weight for every 1% infestation and up to 21% in corn production fields. In Brazil, the most commonly reported species are Diatraea saccharalis (Fabricius, 1794) and Diatraea impersonatella (Walker, 1863) (= D...
2017: PloS One
https://www.readbyqxmd.com/read/29131456/performance-and-hemtochemical-parameters-of-buck-kids-fed-concentrate-partially-replaced-with-tropical-piliostigma-thonningii-foliage
#10
Olurotimi A Olafadehan, Ahmed A Njidda, Sunday A Okunade, Sarah O Salihu, David O Balogun, Abdelfattah Z M Salem
Fifteen 5-month-old Red Sokoto buck-kids, (6.6 ± 0.71 kg body weight (BW)) randomly distributed into three groups of five animals per group, were used to study the effects of supplementary concentrate partially replaced with Piliostigma thonningii (PT) foliage on the growth performance, economic benefit and blood profile in a completely randomized design using analysis of variance. The goats in group 1 received 100% supplementary concentrates (PT0), groups 2 and 3 received 25% (PT25) and 50% (PT50), respectively, of concentrate replaced with an equal amount (dry matter basis) of Piliostigma foliage...
November 12, 2017: Animal Science Journal, Nihon Chikusan Gakkaihō
https://www.readbyqxmd.com/read/29126242/differential-manipulation-of-leaf-angle-throughout-the-canopy-current-status-and-prospects
#11
Maria Betsabe Mantilla-Perez, Maria G Salas Fernandez
Leaf angle is defined as the inclination between the midrib of the leaf blade and the vertical stem of a plant. This trait has been identified as a key component in the development of high-yielding varieties of cereal species, particularly maize, rice, wheat, and sorghum. The effect of leaf angle on light interception efficiency, photosynthetic rate, and yield has been investigated since the 1960s, yet, significant knowledge gaps remain in understanding the genetic control of this complex trait. Recent advances in physiology and modeling have proposed a plant ideotype with varying leaf angles throughout the canopy...
November 6, 2017: Journal of Experimental Botany
https://www.readbyqxmd.com/read/29117141/awareness-and-prevalence-of-mycotoxin-contamination-in-selected-nigerian-fermented-foods
#12
Ifeoluwa Adekoya, Patrick Njobeh, Adewale Obadina, Cynthia Chilaka, Sheila Okoth, Marthe De Boevre, Sarah De Saeger
Fermented food samples (n = 191) including maize gruel (ogi), sorghum gruel (ogi-baba), melon seed (ogiri), locust bean (iru) and African oil bean seed (ugba) from Southwest Nigeria were quantified for 23 mycotoxins, including aflatoxin B₁ (AFB₁), fumonisin B₁ (FB₁), and sterigmatocystin (STE) using liquid chromatography-tandem mass spectrometry. The practices, perceived understanding and health risks related to fungal and mycotoxin contamination amongst fermented food sellers was also established. Data obtained revealed that 82% of the samples had mycotoxins occurring singly or in combination...
November 8, 2017: Toxins
https://www.readbyqxmd.com/read/29116530/plant-assays-and-avoidance-tests-with-collembola-and-earthworms-demonstrate-rehabilitation-success-in-bauxite-residue
#13
Gerard Finngean, Audrey O'Grady, Ronan Courtney
Bauxite residues are a by-product of alumina manufacture from bauxite ore and are commonly disposed of in purpose-built bauxite residue disposal areas (BRDAs). Revegetation is viewed as the most effective way to landscape and rehabilitate closed BRDAS and physicochemical assessment remains the primary indicator of rehabilitation success. Little is known about the ability of keystone mesofaunal species to colonise and establish in these environments yet the long-term success of rehabilitation is dependent on residues becoming suitable habitats for such groups...
November 7, 2017: Environmental Science and Pollution Research International
https://www.readbyqxmd.com/read/29113834/aflatoxin-b1-impairs-sperm-quality-and-fertilization-competence
#14
A Komsky-Elbaz, M Saktsier, Z Roth
Aflatoxins are poisonous byproducts of the soilborne fungus Aspergillus, involved in the decomposition of plant materials. Aflatoxins can be found in various food products, such as maize, sorghum, millet, rice and wheat. AFB1 is the most toxic of these, classified as a carcinogen and mutagen for both humans and animals. AFB1 has been detected in human cord blood and placenta; however, its toxic effect on sperm is less known. The current study examines sperm responses associated with AFB1 exposure. These included acrosome integrity and function, mitochondrial polarity, DNA fragmentation, fertilization competence and early embryonic development...
November 4, 2017: Toxicology
https://www.readbyqxmd.com/read/29108042/ground-juniperus-pinchotii-and-urea-in-supplements-fed-to-rambouillet-ewe-lambs-part-2-ewe-lamb-rumen-microbial-communities
#15
S L Ishaq, C J Yeoman, T R Whitney
This study evaluated effects of ground redberry juniper () and urea in dried distillers grains with solubles-based supplements fed to Rambouillet ewe lambs ( = 48) on rumen physiological parameters and bacterial diversity. In a randomized study (40 d), individually-penned lambs were fed ground sorghum-sudangrass hay and of 1 of 8 supplements (6 lambs/treatment; 533 g/d; as-fed basis) in a 4 × 2 factorial design with 4 concentrations of ground juniper (15%, 30%, 45%, or 60% of DM) and 2 levels of urea (1% or 3% of DM)...
October 2017: Journal of Animal Science
https://www.readbyqxmd.com/read/29108041/effects-of-silage-type-and-inclusion-level-on-ruminal-characteristics-and-feeding-behavior-of-steers-fed-finishing-diets
#16
P R B Campanili, J O Sarturi, M A Ballou, S J Trojan, J D Sugg, L A Ovinge, A U Alrumaih, L A Pellarin, A A Hoffman
Crossbred beef steers fitted with a ruminal cannula were used to study the effects of silage type (BH 8895 corn or AF7401 sorghum) and level of inclusion (10 or 20%) in beef cattle finishing diets on digestibility of nutrients, ruminal kinetics, in vitro methane production, and feeding behavior. A 4 × 6 unbalanced Latin square design was used (6 steers; 363 ± 23 kg; 4 diets: corn silage [CS] or sorghum silage [SS], both at 10 or 20% inclusion, DM basis). Each period consisted of 14 d of adaptation and 7 d of collection...
October 2017: Journal of Animal Science
https://www.readbyqxmd.com/read/29104581/a-high-density-genetic-map-of-wild-emmer-wheat-from-the-karaca-da%C3%A4-region-provides-new-evidence-on-the-structure-and-evolution-of-wheat-chromosomes
#17
Chad Jorgensen, Ming-Cheng Luo, Ramesh Ramasamy, Mathew Dawson, Bikram S Gill, Abraham B Korol, Assaf Distelfeld, Jan Dvorak
Wild emmer (Triticum turgidum ssp. dicoccoides) is a progenitor of all cultivated wheat grown today. It has been hypothesized that emmer was domesticated in the Karaca Dağ region in southeastern Turkey. A total of 445 recombinant inbred lines of T. turgidum ssp. durum cv. 'Langdon' x wild emmer accession PI 428082 from this region was developed and genotyped with the Illumina 90K single nucleotide polymorphism Infinium assay. A genetic map comprising 2,650 segregating markers was constructed. The order of the segregating markers and an additional 8,264 co-segregating markers in the Aegilops tauschii reference genome sequence was used to compare synteny of the tetraploid wheat with the Brachypodium distachyon, rice, and sorghum...
2017: Frontiers in Plant Science
https://www.readbyqxmd.com/read/29098377/overexpression-of-sweet-sorghum-cryptochrome-1a-confers-hypersensitivity-to-blue-light-abscisic-acid-and-salinity-in-arabidopsis
#18
Tingting Zhou, Lingyang Meng, Yue Ma, Qing Liu, Yunyun Zhang, Zhenming Yang, Deguang Yang, Mingdi Bian
This work provides the bioinformatics, expression pattern and functional analyses of cryptochrome 1a from sweet sorghum (SbCRY1a), together with an exploration of the signaling mechanism mediated by SbCRY1a. Sweet sorghum [Sorghum bicolor (L.) Moench] is considered to be an ideal candidate for biofuel production due to its high efficiency of photosynthesis and the ability to maintain yield under harsh environmental conditions. Blue light receptor cryptochromes regulate multiple aspects of plant growth and development...
November 2, 2017: Plant Cell Reports
https://www.readbyqxmd.com/read/29062306/the-pgpr-stenotrophomonas-maltophilia-sbp-9-augments-resistance-against-biotic-and-abiotic-stress-in-wheat-plants
#19
Rajnish P Singh, Prabhat N Jha
Certain plant growth promoting bacteria have ability to ameliorate abiotic and/or biotic stressors, which can be exploited to enhance plant growth and productivity of the plants under stress conditions. Therefore, the present study aimed to examine the role of a rhizospheric bacterial isolate SBP-9 isolated from Sorghum bicolor (i) in promoting the wheat plant growth under salinity stress, and (ii) in enhancing the defense response in wheat against fungal pathogen "Fusarium graminearum." The test isolate possessed plant growth promoting (PGP) traits including ACC deaminase (ACCD), gibberellic acid, indole acetic acid (IAA), siderophore, and inorganic phosphate solubilization...
2017: Frontiers in Microbiology
https://www.readbyqxmd.com/read/29058309/interplay-between-silica-deposition-and-viability-during-the-life-span-of-sorghum-silica-cells
#20
Santosh Kumar, Rivka Elbaum
Silica cells are specialized epidermal cells found on both surfaces of grass leaves, with almost the entire lumen filled with solid silica. The mechanism precipitating silicic acid into silica is not known. Here we investigate this process in sorghum (Sorghum bicolor) leaves. Using fluorescent confocal microscopy, we followed silica cells' ontogeny, aiming to understand the fate of vacuoles and nuclei. Correlating the confocal and scanning electron microscopy, we timed the initiation of silica deposition in relation to cell's viability...
October 23, 2017: New Phytologist
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