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Articles 10291 - 10320 of 10665
Full-Text Articles in Plant Biology
Production, Persistence And Diversity Of Species In Temperate Grasslands, Meredith L. Mitchell, Brendan P. Christy
Production, Persistence And Diversity Of Species In Temperate Grasslands, Meredith L. Mitchell, Brendan P. Christy
IGC Proceedings (1977-2023)
Temperate grassland areas are considered to be semi-arid, with rainfall typically between 250 and 500 mm, much of it occurring in the late spring and early summer. Grazing plays an important role in all these grasslands with impacts on diversity and persistence. Against this assumption that seasonal productivity would be more uniform within a pasture that was diverse, the research suggested that species rich pastures were less stable, because this species richness was composed of non-perennial, volunteer and weed species. This paper explores the concept that systems diversity of temperate grassland does not always equate to production. In these systems …
Using Various Lactic Acid Bacteria Strains During Forage Conservation Towards Fermentation, Storage, Nutritive Value And Safety Improvement, Jonas Jatkauskas, Vilma Vrotniakiene
Using Various Lactic Acid Bacteria Strains During Forage Conservation Towards Fermentation, Storage, Nutritive Value And Safety Improvement, Jonas Jatkauskas, Vilma Vrotniakiene
IGC Proceedings (1977-2023)
Many research efforts have been devoted to find ways how to produce silages with maximum nutritive value, good fermentation and low mould and yeast counts. While there are different objectives in using silage additives, the main objectives are to improve fermentation and reduce dry matter loss, and to prevent secondary fermentation at feed out time. This paper presents our most significant and recent investigations on forage inoculation before ensiling that have a potential for beneficial application on grassland and ruminant nutrition.
Traditional Livestock Production And Growth Opportunities In India, S. M. Deb
Traditional Livestock Production And Growth Opportunities In India, S. M. Deb
IGC Proceedings (1977-2023)
Livestock and animal health development projects need to be based on an understanding of livestock production systems because different systems need different approaches particularly in view of degradation of environment combined with population pressure. In India, the livestock production system is primarily traditional, consisting of mixed-farming and pastoral systems, therefore, development of marginal and smallholder mixed farms must aim at intensification of the total production system. Resource-poor farming systems may aim at the improved management of the various livestock species in backyards. Pastoral systems must focus on effective management of grazing pressure. Community pasture management involves application of technologies, land …
Nutrient Movements Through Ruminant Livestock Production Systems, Adegbola T. Adesogan, Jose C. B. Dubeux, Lynn E. Sollenberger
Nutrient Movements Through Ruminant Livestock Production Systems, Adegbola T. Adesogan, Jose C. B. Dubeux, Lynn E. Sollenberger
IGC Proceedings (1977-2023)
Considerable attention has been paid to reducing nutrient emissions from ruminant livestock in the last few decades. This area will continue to attract considerable research in the future due to increasing farm sizes in some developed countries as well as the increasing demand for meat and dairy products, particularly in developing countries. This paper discusses the deposition and losses of carbon and nitrogen in soils and plants in grazed and harvested forage systems as well as utilization and losses of both nutrients by ruminants in both systems. The paper also outlines several soil, plant, and animal-focused strategies that can be …
Rainwater Harvesting And Its Impact On Farming Systems, J. S. Samra
Rainwater Harvesting And Its Impact On Farming Systems, J. S. Samra
IGC Proceedings (1977-2023)
Landless, small holders and other poors supplement their livelihood and adapt to climate change by grazing, stall feeding with crop residues and fodder cultivated under rainfed and irrigated conditions. Improving productivity by conserving rainfall, ground water recharging, harvesting and recycling of rainwater especially in degraded open access or shared land with community participation was quite successful over a wide range of precipitation and ecological situations. Various types of trenches, bunding, vegetative barriers, gully plugs, ponds, check dams, land slides and mine spoils stabilization etc. retained more soil moisture, seeds, vegetative propagules etc. in situ and prevented soil erosion. It regenerated …
Strengthening Livelihood Of Rural Farmer Populations Through Improved Grasslands, Sujatha Premaratne, S. C. Somasiri
Strengthening Livelihood Of Rural Farmer Populations Through Improved Grasslands, Sujatha Premaratne, S. C. Somasiri
IGC Proceedings (1977-2023)
This paper reviews the current background of the grassland resource with a purpose of livestock perspective to improve the livelihood of rural farmers. The use of grasslands for livestock rearing by rural farmers has been a long tradition. In climate and vegetation contrast, these grasslands are much more diverse. They are likely to play an economical role in increasing the milk production in many Asian countries. With an increase of human population, the traditional feeding, breeding and surviving habitats for livestock have been acutely restricted in many countries. Therefore, a continued effort is needed to maintain production for sustainable management …
Problems And Prospects Of Grassland Development: Policy Issues, S. Ray Smith
Problems And Prospects Of Grassland Development: Policy Issues, S. Ray Smith
IGC Proceedings (1977-2023)
There are a range of government and non-government policies that affect grassland development around the world. The objective of this paper is to provide examples of successful policies which have been instrumental in the preservation and maintenance of grasslands and to highlight policies which have resulted in negative consequences. This paper will not attempt to provide a complete overview of policies, but instead will provide examples from representative countries. Policies which affect grasslands can be classified into two broad categories: government policies that cover comprehensive landscape issues like the Grassland Household Contract System (GHCS) in China or the Federal Land …
Management Of Grazing Lands Through Educating Communities, D. Ariungerel, Graeme Hand, Annabel Walsh
Management Of Grazing Lands Through Educating Communities, D. Ariungerel, Graeme Hand, Annabel Walsh
IGC Proceedings (1977-2023)
The Mongolian steppe is one of the world’s largest grassland and it is an arid to semiarid land with a strong climate gradient. Biodiversity loss leading to desertification and land degradation is estimated to be impacting around 65% of the total area of Mongolia. The preliminary objective of this project was to trial the Positive Deviance Methodology to determine if this method assists herders to design behaviors to reverse this biodiversity loss. This project is a partnership between Mongolian Herders, Mongolian rangeland scientists and Australian based Stipa Native Grasses Association. The Positive Deviance Methodology has five basic steps based around …
Livestock And Local Development: Going To A New Humananimal Relationship, Jean François Tourrand, Laurent Dobremez, Benoit Dedieu, Guillaume Duteurtre, M. G. Piketty, P. Lescoat, B. Hubert
Livestock And Local Development: Going To A New Humananimal Relationship, Jean François Tourrand, Laurent Dobremez, Benoit Dedieu, Guillaume Duteurtre, M. G. Piketty, P. Lescoat, B. Hubert
IGC Proceedings (1977-2023)
Along the past ten years, the French National Agency for Research (ANR) has financed projects regarding livestock. Results of five projects were gathered to understand the long-term livestock trends. At the end of the 19th century, animal breeding was oriented towards the production of goods to meet the local, regional, national and global demand, according to the zone. The market gradually became the key-factor to norm both production and consumption. It is now integrating environmental norms and is starting to invest in the social domain. However, this economical vision of animal production does not take into account the other functions …
Genomic Approaches For Dissecting Complex Traits Related To Quality Production Of Range Grasses, Masumi Ebina
Genomic Approaches For Dissecting Complex Traits Related To Quality Production Of Range Grasses, Masumi Ebina
IGC Proceedings (1977-2023)
Tropical grasses have been widely used as warm-season forage grasses in the warm temperate zone since the early 20th century because of their high yields; they have also been used as perennial forages in their native tropical areas. Increasing demand for animal production sparked by economic development in tropical countries is requiring breeders to improve native forage grasses in these countries. Considerable efforts have been made to breed accessions with improved characteristics and to develop new cultivars. However, cross-breeding is not common, owing to a lack of genetic information and to complexities related to polyploidy, high sterility rates, outcrossing, and …
Emission Of Green House Gases From Grasslands And Their Mitigation, Prem N. Sharma, Shyam Khadka
Emission Of Green House Gases From Grasslands And Their Mitigation, Prem N. Sharma, Shyam Khadka
IGC Proceedings (1977-2023)
The concentrations of green house gases (GHG) in the atmosphere began in pre-industrial times and it continues to increase. This could result into an alarming increase in temperature of up to 5.4 oC by year 2100 due to a net global annual GHG emission of H 4.5-6.5 Gt C equivalent. About 18% of the world’s GHG are contributed by livestock and related activities on grasslands that are spread over almost 35 million Km2.These grasslands give livelihood to over a billion people most of who are poor. Twenty to 70% of the land surface area is degrading often …
High-Altitude Grassland Management And Improvement Of Pastoral Livelihoods In The Hindu Kush Himalayan Region, Eklabya Sharma
High-Altitude Grassland Management And Improvement Of Pastoral Livelihoods In The Hindu Kush Himalayan Region, Eklabya Sharma
IGC Proceedings (1977-2023)
The Hindu Kush Himalayan (HKH) region is the largest mountain systems in the world, spanning over 4.3 million km2 and covering 3500 km long fragile environment. Grasslands in the HKH region are the source of livelihoods for approximately 25 to 30 million pastoralists and agro-pastoralists. High altitude grasslands play a significant role in storage and regulation of water; storage of carbon in soil and peat lands; permafrost storage; and stabilization of climate, soil, and nutrients. They foster a rich biodiversity with endemic species of fauna and flora; provide clean air and open spaces for recreational purposes, and bolster a rich …
Potential For Crop Production Increase In Argentina Through Closure Of Existing Yield Gaps, Fernando Aramburu Merlos, Juan Pablo Monzon, Jorge L. Mercau, Miguel Taboada, Fernando H. Andrade, Antonio J. Hall, Esteban Jobbagy, Kenneth Cassman, Patricio Grassini
Potential For Crop Production Increase In Argentina Through Closure Of Existing Yield Gaps, Fernando Aramburu Merlos, Juan Pablo Monzon, Jorge L. Mercau, Miguel Taboada, Fernando H. Andrade, Antonio J. Hall, Esteban Jobbagy, Kenneth Cassman, Patricio Grassini
Department of Agronomy and Horticulture: Faculty Publications
Favorable climate and soils for rainfed crop production, together with a relatively low population density,results in 70–90% of Argentina grain production being exported. No assessment to date has tried to estimate the potential for extra grain production for soybean, wheat and maize, which account for 78%of total harvested area, by yield gap closure on existing cropland area and its impact at a global scale.The objectives of this paper are (i) to estimate how much additional grain could be produced without expanding crop area by closing yield gaps in Argentina, (ii) to investigate how this production and yield gaps varies across …
Qtl For Seed Protein And Amino Acids In The Benning × Danbaekkong Soybean Population, C. V. Warrington, H. Abdel‑Haleem, D. L. Hyten, P. B. Cregan, J. H. Orf, A. S. Killam, N. Bajjalieh, Z. Li, H. R. Boerma
Qtl For Seed Protein And Amino Acids In The Benning × Danbaekkong Soybean Population, C. V. Warrington, H. Abdel‑Haleem, D. L. Hyten, P. B. Cregan, J. H. Orf, A. S. Killam, N. Bajjalieh, Z. Li, H. R. Boerma
Department of Agronomy and Horticulture: Faculty Publications
Soybean, rather than nitrogen-containing forages, is the primary source of quality protein in feed formulations for domestic swine, poultry, and dairy industries. As a sole dietary source of protein, soybean is deficient in the amino acids lysine (Lys), threonine (Thr), methionine (Met), and cysteine (Cys). Increasing these amino acids would benefit the feed industry. The objective of the present study was to identify quantitative trait loci (QTL) associated with crude protein (cp) and amino acids in the ‘Benning’ × ‘Danbaekkong’ population. The population was grown in five southern USA environments. Amino acid concentrations as a fraction of cp (Lys/cp, Thr/cp, …
Fingerprinting Soybean Germplasm And Its Utility In Genomic Research, Qijian Song, D. L. Hyten, Gaofeng Jia, Charles V. Quigley, Edward W. Fickus, Randall L. Nelson, P. B. Cregan
Fingerprinting Soybean Germplasm And Its Utility In Genomic Research, Qijian Song, D. L. Hyten, Gaofeng Jia, Charles V. Quigley, Edward W. Fickus, Randall L. Nelson, P. B. Cregan
Department of Agronomy and Horticulture: Faculty Publications
The United States Department of Agriculture, Soybean Germplasm Collection includes 18,480 domesticated soybean and 1,168 wild soybean accessions introduced from 84 countries or developed in the U.S. This collection was genotyped with the SoySNP50K BeadChip containing greater than 50K SNPs. Redundant accessions were identified in the collection and distinct genetic backgrounds of soybean from different geographic origins were observed that could be a unique resource for soybean genetic improvement. We detected a dramatic reduction of genetic diversity based on linkage disequilibrium and haplotype structure analyses of the wild, landrace and North American cultivar populations and identified candidate regions associated with …
A Genomic Selection Index Applied To Simulated And Real Data, J. Jesus Ceron-Rojas, Jose Crossa, Vivi N. Arief, Kaye Basford, Jessica Rutkoski, Diego Jarquin, Gregorio Alvarado, Yoseph Beyene, Kassa Semagn, Ian Delacy
A Genomic Selection Index Applied To Simulated And Real Data, J. Jesus Ceron-Rojas, Jose Crossa, Vivi N. Arief, Kaye Basford, Jessica Rutkoski, Diego Jarquin, Gregorio Alvarado, Yoseph Beyene, Kassa Semagn, Ian Delacy
Department of Agronomy and Horticulture: Faculty Publications
A genomic selection index (GSI) is a linear combination of genomic estimated breeding values that uses genomic markers to predict the net genetic merit and select parents from a nonphenotyped testing population. Some authors have proposed a GSI; however, they have not used simulated or real data to validate the GSI theory and have not explained how to estimate the GSI selection response and the GSI expected genetic gain per selection cycle for the unobserved traits after the first selection cycle to obtain information about the genetic gains in each subsequent selection cycle. In this paper, we develop the theory …
First Approximations Of Prescribed Fire Risks Relative To Other Management Techniques Used On Private Lands, Dirac L. Twidwell, Carissa L. Wonkka, Michael T. Sindelar, John R. Weir
First Approximations Of Prescribed Fire Risks Relative To Other Management Techniques Used On Private Lands, Dirac L. Twidwell, Carissa L. Wonkka, Michael T. Sindelar, John R. Weir
Department of Agronomy and Horticulture: Faculty Publications
Fire is widely recognized as a critical ecological and evolutionary driver that needs to be at the forefront of land management actions if conservation targets are to be met. However, the prevailing view is that prescribed fire is riskier than other land management techniques. Perceived risks associated with the application of fire limits its use and reduces agency support for prescribed burning in the private sector. As a result, considerably less cost-share support is given for prescribed fire compared to mechanical techniques. This study tests the general perception that fire is a riskier technique relative to other land management options. …
Transgenic Wheat Expressing A Barley Udp-Glucosyltransferase Detoxifies Deoxynivalenol And Provides High Levels Of Resistance To Fusarium Graminearum, Xi Li, Sanghyun Shin, Shane Heinen, Ruth Dill-Macky, Franz Berthiller, Natalya Nersesian, Thomas Clemente, Susan Mccormick, Gary J. Muehbauer
Transgenic Wheat Expressing A Barley Udp-Glucosyltransferase Detoxifies Deoxynivalenol And Provides High Levels Of Resistance To Fusarium Graminearum, Xi Li, Sanghyun Shin, Shane Heinen, Ruth Dill-Macky, Franz Berthiller, Natalya Nersesian, Thomas Clemente, Susan Mccormick, Gary J. Muehbauer
Department of Agronomy and Horticulture: Faculty Publications
Fusarium head blight (FHB), mainly caused by Fusarium graminearum, is a devastating disease of wheat that results in economic losses worldwide. During infection, F. graminearum produces trichothecene mycotoxins, including deoxynivalenol (DON), that increase fungal virulence and reduce grain quality. Transgenic wheat expressing a barley UDP-glucosyltransferase (HvUGT13248) were developed and evaluated for FHB resistance, DON accumulation, and the ability to metabolize DON to the less toxic DON-3-O-glucoside (D3G). Pointinoculation tests in the greenhouse showed that transgenic wheat carrying HvUGT13248 exhibited significantly higher resistance to disease spread in the spike (type II resistance) compared with nontransformed controls. Two transgenic …
Understanding Rice Adaptation To Varying Agro-Ecosystems: Trait Interactions And Quantitative Trait Loci, Shalabh Dixit, Alexandre Grondin, Cheng-Ruei Lee, Amelia Henry, Thomas-Mitchell Olds, Arvind Kumar
Understanding Rice Adaptation To Varying Agro-Ecosystems: Trait Interactions And Quantitative Trait Loci, Shalabh Dixit, Alexandre Grondin, Cheng-Ruei Lee, Amelia Henry, Thomas-Mitchell Olds, Arvind Kumar
Department of Agronomy and Horticulture: Faculty Publications
Background: Interaction and genetic control for traits influencing the adaptation of the rice crop to varying environments was studied in a mapping population derived from parents (Moroberekan and Swarna) contrasting for drought tolerance, yield potential, lodging resistance, and adaptation to dry direct seeding. A BC2F3-derived mapping population for traits related to these four trait groups was phenotyped to understand the interactions among traits and to map and align QTLs using composite interval mapping (CIM). The study also aimed to identify QTLs for the four trait groups as composite traits using multivariate least square interval mapping (MLSIM) …
Aquaporins Contribute To Aba-Triggered Stomatal Closure Through Ost1-Mediated Phosphorylation, Alexandre Grondin, Olivier Rodrigues, Lionel Verdoucq, Sylvain Merlot, Nathalie Leonhardt, Christophe Maurel
Aquaporins Contribute To Aba-Triggered Stomatal Closure Through Ost1-Mediated Phosphorylation, Alexandre Grondin, Olivier Rodrigues, Lionel Verdoucq, Sylvain Merlot, Nathalie Leonhardt, Christophe Maurel
Department of Agronomy and Horticulture: Faculty Publications
Stomatal movements in response to environmental stimuli critically control the plant water status. Although these movements are governed by osmotically driven changes in guard cell volume, the role of membrane water channels (aquaporins) has remained hypothetical. Assays in epidermal peels showed that knockout Arabidopsis thaliana plants lacking the Plasma membrane Intrinsic Protein 2;1 (PIP2;1) aquaporin have a defect in stomatal closure, specifically in response to abscisic acid (ABA). ABA induced a 2-fold increase in osmotic water permeability (Pf) of guard cell protoplasts and an accumulation of reactive oxygen species in guard cells, which were both abrogated in …
Proteomic Profiling Of Maize Opaque Endosperm Mutants Reveals Selective Accumulation Of Lysine-Enriched Proteins, Kyla J. Morton, Shangang Jia, Chi Zhang, David R. Holding
Proteomic Profiling Of Maize Opaque Endosperm Mutants Reveals Selective Accumulation Of Lysine-Enriched Proteins, Kyla J. Morton, Shangang Jia, Chi Zhang, David R. Holding
Department of Agronomy and Horticulture: Faculty Publications
Reduced prolamin (zein) accumulation and defective endoplasmic reticulum (ER) body formation occurs in maize opaque endosperm mutants opaque2 (o2), floury2 (fl2), defective endosperm*B30 (DeB30), and Mucronate (Mc), whereas other opaque mutants such as opaque1 (o1) and floury1 (fl1) are normal in these regards. This suggests that other factors contribute to kernel texture. A liquid chromatography approach coupled with tandem mass spectrometry (LC-MS/MS) proteomics was used to compare non-zein proteins of nearly isogenic opaque endosperm mutants. In total, 2762 proteins were identified that were enriched for biological processes such as protein transport and folding, amino acid biosynthesis, …
Tonoplast Sugar Transporters (Sbtsts) Putatively Control Sucrose Accumulation In Sweet Sorghum Stems, Saadia Bihmidine, Benjamin T. Julius, Ismail M. Dweikat, David M. Braun
Tonoplast Sugar Transporters (Sbtsts) Putatively Control Sucrose Accumulation In Sweet Sorghum Stems, Saadia Bihmidine, Benjamin T. Julius, Ismail M. Dweikat, David M. Braun
Department of Agronomy and Horticulture: Faculty Publications
Carbohydrates are differentially partitioned in sweet versus grain sorghums. While the latter preferentially accumulate starch in the grain, the former primarily store large amounts of sucrose in the stem. Previous work determined that neither sucrose metabolizing enzymes nor changes in Sucrose transporter (SUT) gene expression accounted for the carbohydrate partitioning differences. Recently, 2 additional classes of sucrose transport proteins, Tonoplast Sugar Transporters (TSTs) and SWEETs, were identified; thus, we examined whether their expression tracked sucrose accumulation in sweet sorghum stems. We determined 2 TSTs were differentially expressed in sweet vs. grain sorghum stems, likely underlying the massive difference in sucrose …
Selection For Silage Yield And Composition Did Not Affect Genomic Diversity Within The Wisconsin Quality Synthetic Maize Population, Aaron Lorenz, Timothy M. Beissinger, Renato Rodrigues Silva, Natalia De Leon
Selection For Silage Yield And Composition Did Not Affect Genomic Diversity Within The Wisconsin Quality Synthetic Maize Population, Aaron Lorenz, Timothy M. Beissinger, Renato Rodrigues Silva, Natalia De Leon
Department of Agronomy and Horticulture: Faculty Publications
Maize silage is forage of high quality and yield, and represents the second most important use of maize in the United States. The Wisconsin Quality Synthetic (WQS) maize population has undergone five cycles of recurrent selection for silage yield and composition, resulting in a genetically improved population. The application of high-density molecular markers allows breeders and geneticists to identify important loci through association analysis and selection mapping, as well as to monitor changes in the distribution of genetic diversity across the genome. The objectives of this study were to identify loci controlling variation for maize silage traits through association analysis …
A Roadmap For Functional Structural Variants In The Soybean Genome, Justin E. Anderson, Michael B. Kantar, Thomas Y. Kono, Fengli Fu, Adrian O. Stec, Qijian Song, Perry B. Cregan, James E. Specht, Brian W. Diers, Steven B. Cannon, Leah K. Mchale, Robert M. Stupar
A Roadmap For Functional Structural Variants In The Soybean Genome, Justin E. Anderson, Michael B. Kantar, Thomas Y. Kono, Fengli Fu, Adrian O. Stec, Qijian Song, Perry B. Cregan, James E. Specht, Brian W. Diers, Steven B. Cannon, Leah K. Mchale, Robert M. Stupar
Department of Agronomy and Horticulture: Faculty Publications
Gene structural variation (SV) has recently emerged as a key genetic mechanism underlying several important phenotypic traits in crop species. We screened a panel of 41 soybean (Glycine max) accessions serving as parents in a soybean nested association mapping population for deletions and duplications in more than 53,000 gene models. Array hybridization and whole genome resequencing methods were used as complementary technologies to identify SV in 1528 genes, or approximately 2.8%, of the soybean gene models. Although SV occurs throughout the genome, SV enrichment was noted in families of biotic defense response genes. Among accessions, SV was nearly eightfold less …
Overexpression Of The Transporters Atzip1 And Atmtp1 In Cassava Changes Zinc Accumulation And Partitioning, Eliana Gaitán-Solis, Nigel J. Taylor, Dimuth Siritunga, William Stevens, Daniel P. Schachtman
Overexpression Of The Transporters Atzip1 And Atmtp1 In Cassava Changes Zinc Accumulation And Partitioning, Eliana Gaitán-Solis, Nigel J. Taylor, Dimuth Siritunga, William Stevens, Daniel P. Schachtman
Department of Agronomy and Horticulture: Faculty Publications
Zinc deficiency in humans is a serious problem worldwide with an estimated one third of populations at risk for insufficient zinc in diet, which leads to impairment of cognitive abilities and immune system function. The goal of this research was to increase the bioavailable zinc in the edible portion of cassava roots to improve the overall zinc nutrition of populations that rely on cassava as a dietary staple. To increase zinc concentrations, two Arabidopsis thaliana genes coding for ZIP1 and MTP1 were overexpressed with a tuber-specific or constitutive promoter. Eighteen transgenic events from four constructs, out of a total of …
Differential Expression Analysis In Rna-Seq By A Naive Bayes Classifier With Local Normalization, Yongchao Dou, Xiaomei Guo, Lingling Yuan, David R. Holding, Chi Zhang
Differential Expression Analysis In Rna-Seq By A Naive Bayes Classifier With Local Normalization, Yongchao Dou, Xiaomei Guo, Lingling Yuan, David R. Holding, Chi Zhang
Department of Agronomy and Horticulture: Faculty Publications
To improve the applicability of RNA-seq technology, a large number of RNA-seq data analysis methods and correction algorithms have been developed. Although these new methods and algorithms have steadily improved transcriptome analysis, greater prediction accuracy is needed to better guide experimental designs with computational results. In this study, a new tool for the identification of differentially expressed genes with RNA-seq data, named GExposer, was developed. This tool introduces a local normalization algorithm to reduce the bias of nonrandomly positioned read depth. The naive Bayes classifier is employed to integrate fold change, transcript length, and GC content to identify differentially expressed …
Plants Coping Abiotic And Biotic Stresses: A Tale Of Diligent Management, Hatem Rouached, Sikander Pal, Shimon Rachmilevitch, Marc Libault, Lam-Son Phan Tran
Plants Coping Abiotic And Biotic Stresses: A Tale Of Diligent Management, Hatem Rouached, Sikander Pal, Shimon Rachmilevitch, Marc Libault, Lam-Son Phan Tran
Department of Agronomy and Horticulture: Faculty Publications
Plants unlike other living forms are sessile thereby facing severe biotic and abiotic stresses. Plants have evolved different efficient defence responses which thrive upon a number of intrinsic factors, such as genotypic and phenotypic constitutions and developmental circumstances, and extrinsic factors like severity and duration of the stresses. Stress management uses molecular and biochemical level controls, the competence, and speed, at which a stress signal is perceived and transmitted to generate stress signal molecules and activate stress-protective mechanisms. A well-concerted action of the plants’ competence at morphological, physiological, biochemical, and molecular strata regulates numerous adaptive responses to biotic and abiotic …
Identification Of Novel Qtl Governing Root Architectural Traits In An Interspecific Soybean Population, Lakshmi P. Manavalan, Silvas J. Prince, Theresa A. Musket, Julian Chaky, Rupesh Deshmukh, Tri D. Vuong, Li Song, Perry B. Cregan, James C. Nelson, J. Grover Shannon, James E. Specht, Henry T. Nguyen
Identification Of Novel Qtl Governing Root Architectural Traits In An Interspecific Soybean Population, Lakshmi P. Manavalan, Silvas J. Prince, Theresa A. Musket, Julian Chaky, Rupesh Deshmukh, Tri D. Vuong, Li Song, Perry B. Cregan, James C. Nelson, J. Grover Shannon, James E. Specht, Henry T. Nguyen
Department of Agronomy and Horticulture: Faculty Publications
Cultivated soybean (Glycine max L.) cv. Dunbar (PI 552538) and wild G. soja (PI 326582A) exhibited significant differences in root architecture and root-related traits. In this study, phenotypic variability for root traits among 251 BC2F5 backcross inbred lines (BILs) developed from the cross Dunbar/PI 326582A were identified. The root systems of the parents and BILs were evaluated in controlled environmental conditions using a cone system at seedling stage. The G. max parent Dunbar contributed phenotypically favorable alleles at a major quantitative trait locus on chromosome 8 (Satt315-I locus) that governed root traits (tap root length and …
Genetic And Molecular Characterization Of Submergence Response Identifies Subtol6 As A Major Submergence Tolerance Locus In Maize, Malachy T. Campbell, Christopher A. Proctor, Yongchao Dou, Aaron J. Schmitz, Piyaporn Phansak, Greg R. Kruger, Chi Zhang, Harkamal Walia
Genetic And Molecular Characterization Of Submergence Response Identifies Subtol6 As A Major Submergence Tolerance Locus In Maize, Malachy T. Campbell, Christopher A. Proctor, Yongchao Dou, Aaron J. Schmitz, Piyaporn Phansak, Greg R. Kruger, Chi Zhang, Harkamal Walia
Department of Agronomy and Horticulture: Faculty Publications
Maize is highly sensitive to short term flooding and submergence. Early season flooding reduces germination, survival and growth rate of maize seedlings. We aimed to discover genetic variation for submergence tolerance in maize and elucidate the genetic basis of submergence tolerance through transcriptional profiling and linkage analysis of contrasting genotypes. A diverse set of maize nested association mapping (NAM) founder lines were screened, and two highly tolerant (Mo18Wand M162W) and sensitive (B97 and B73) genotypes were identified. Tolerant lines exhibited delayed senescence and lower oxidative stress levels compared to sensitive lines. Transcriptome analysis was performed on these inbreds to provide …
Allmaps: Robust Scaffold Ordering Based On Multiple Maps, Haibo Tang, Xingtan Zhang, Chenyong Miao, Jisen Zhang, Ray Ming, James C. Schnable, Patrick S. Schnable, Eric Lyons, Jianguo Lu
Allmaps: Robust Scaffold Ordering Based On Multiple Maps, Haibo Tang, Xingtan Zhang, Chenyong Miao, Jisen Zhang, Ray Ming, James C. Schnable, Patrick S. Schnable, Eric Lyons, Jianguo Lu
Department of Agronomy and Horticulture: Faculty Publications
The ordering and orientation of genomic scaffolds to reconstruct chromosomes is an essential step during de novo genome assembly. Because this process utilizes various mapping techniques that each provides an independent line of evidence, a combination of multiple maps can improve the accuracy of the resulting chromosomal assemblies. We present ALLMAPS, a method capable of computing a scaffold ordering that maximizes colinearity across a collection of maps. ALLMAPS is robust against common mapping errors, and generates sequences that are maximally concordant with the input maps. ALLMAPS is a useful tool in building high-quality genome assemblies. ALLMAPS is available at: https://github.com/tanghaibao/jcvi/wiki/ALLMAPS.