Genome Wide Association Mapping Identifies Qtls And Candidate Genes For Salt Tolerance In Soybean

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Genome-wide Association Mapping Identifies QTLS and Candidate Genes for Salt Tolerance in Soybean

Author : Lei Huang
Publisher :
ISBN 13 : 9781303275005
Total Pages : 228 pages
Book Rating : 4.2/5 (75 download)

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Book Synopsis Genome-wide Association Mapping Identifies QTLS and Candidate Genes for Salt Tolerance in Soybean by : Lei Huang

Download or read book Genome-wide Association Mapping Identifies QTLS and Candidate Genes for Salt Tolerance in Soybean written by Lei Huang and published by . This book was released on 2013 with total page 228 pages. Available in PDF, EPUB and Kindle. Book excerpt: Salinity is a common abiotic stress causing soybean yield loss worldwide. Use of tolerant cultivars is an effective and economic approach to coping with this stress. Toward this, research is needed to identify salt-tolerant germplasm and better understand the genetic and molecular basis of salt tolerance in soybean. The objectives of this study were to identify salt-tolerant genotypes, to search for SNPs and QTLs associated with salt tolerance, and to identify candidate salt tolerance genes. A total of 192 diverse soybean lines and cultivars were screened for salt tolerance in the greenhouse based on visual leaf scorch scores after 15--18 days of 120 ml NaCl stress, among which 94 were tolerant while 87 were sensitive. These genotypes were further genotyped using the SoySNP50K iSelect BeadChip with 52,041 single nucleotide polymorphism (SNP) markers, among which 37,281 SNPs were polymorphic with minor allele frequency (MAF) > 5% and present in 75% of all genotypes. Genome-wide association mapping showed that 62 SNP markers representing 6 genomic regions on Chromosomes 2, 3, 5, 6, 8, and 18, respectively were significantly associated with salt tolerance (P

Quantitative Trait Loci Mapping, Genome-wide Association Analysis, and Gene Expression of Salt Tolerance in Soybean

Author : Ailan Zeng
Publisher :
ISBN 13 :
Total Pages : 270 pages
Book Rating : 4.:/5 (14 download)

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Book Synopsis Quantitative Trait Loci Mapping, Genome-wide Association Analysis, and Gene Expression of Salt Tolerance in Soybean by : Ailan Zeng

Download or read book Quantitative Trait Loci Mapping, Genome-wide Association Analysis, and Gene Expression of Salt Tolerance in Soybean written by Ailan Zeng and published by . This book was released on 2016 with total page 270 pages. Available in PDF, EPUB and Kindle. Book excerpt: Salt stress is a common abiotic stress causing yield reduction in soybean. There are differential responses, namely tolerance (excluder) and intolerance (includer), among soybean germplasm. However, the genetic and physiological mechanism for salt tolerance is not clear. Identification of novel QTL for salt tolerance and genes that are differentially expressed under salt stress would help elucidate the salt tolerance mechanism and facilitate the development of salt tolerant cultivars through marker assisted selection (MAS). The objectives of this study were to identify new QTL or genes responsible for salt tolerance using three approaches: QTL mapping, association analysis, and RNA sequencing (RNA-seq). A salt-sensitive cultivar, RA-452, was crossed with a salt-tolerant cultivar, Osage, to develop an F4-derived QTL mapping population. Composite interval mapping (CIM) analysis indicated that a major chloride (Cl-)-tolerant QTL was confirmed and narrowed down on Chr. 3 in both NaCl and KCl treatments, a novel Cl--tolerant QTL on Chr. 15 was identified in NaCl treatment, and a novel Cl--tolerant QTL on Chr. 13 was identified in KCl treatment. Based on the results from the screening of the RA-452 x Osage mapping population, two F4:6 lines with extreme responses, most tolerant and most sensitive, were selected for a time-course gene expression study. A total of 2374, 998, 1746, and 630 differentially expressed genes (DEGs) between salt-tolerant line and salt-sensitive line, were found at 0, 6, 12, and 24 h, respectively. The gene expression profiles of six genes including Glyma.02G228100, Glyma.03G031400, Glyma.04G180300, Glyma.04G180400, Glyma.05G204600, and Glyma.17G173200 were verified by qRT-PCR. In addition, a total of 283 diverse germplasm lines were obtained from the Germplasm Resource Information Network (GRIN) and screened for salt stress response in greenhouse. A total of 33,009 SNPs across 283 genotypes were employed in the association analysis with leaf chloride concentration and leaf chlorophyll concentration. Association analysis results confirmed the salt-tolerance QTL on Chr. 3 and revealed eight new putative QTL on Chr. 2, 7, 8, 10, 13, 14, 16, and 20. These QTL and linked SNP markers will be useful for MAS in breeding salt-tolerant soybean varieties.

The Soybean Genome

Author : Henry T. Nguyen
Publisher : Springer
ISBN 13 : 3319641980
Total Pages : 216 pages
Book Rating : 4.3/5 (196 download)

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Book Synopsis The Soybean Genome by : Henry T. Nguyen

Download or read book The Soybean Genome written by Henry T. Nguyen and published by Springer. This book was released on 2017-09-20 with total page 216 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book examines the application of soybean genome sequences to comparative, structural, and functional genomics. Since the availability of the soybean genome sequence has revolutionized molecular research on this important crop species, the book also describes how the genome sequence has shaped research on transposon biology and applications for gene identification, tilling and positional gene cloning. Further, the book shows how the genome sequence influences research in the areas of genetic mapping, marker development, and genome-wide association mapping for identifying important trait genes and soybean breeding. In closing, the economic and botanical aspects of the soybean are also addressed.

Oil Crops Yearbook

Author :
Publisher :
ISBN 13 :
Total Pages : 60 pages
Book Rating : 4.3/5 (121 download)

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Book Synopsis Oil Crops Yearbook by :

Download or read book Oil Crops Yearbook written by and published by . This book was released on 1996 with total page 60 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Soybean Seed Composition

Author : Moulay Abdelmajid Kassem
Publisher : Springer Nature
ISBN 13 : 3030829065
Total Pages : 638 pages
Book Rating : 4.0/5 (38 download)

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Book Synopsis Soybean Seed Composition by : Moulay Abdelmajid Kassem

Download or read book Soybean Seed Composition written by Moulay Abdelmajid Kassem and published by Springer Nature. This book was released on 2022-01-10 with total page 638 pages. Available in PDF, EPUB and Kindle. Book excerpt: Soybean Seed Composition covers three decades of advances in quantitative trait loci (QTL) mapping of seed protein, oil, fatty acids, amino acids, sugars, mineral nutrients, isoflavones, lunasin, and other beneficial compounds. It opens with coverage of seed protein, oil, fatty acids, and amino acids and the effects that genetic and environmental factors have on them. Detailed discussion of QTL that control seed protein, oil, and fatty acids follows, and the book also covers seed amino acids, macronutrients, micronutrients, sugars, and other compounds that are key to selection for crop improvement. The book also provides an overview of two decades of QTL mapping of mineral deficiencies in soybean, which sheds light on the importance of a balanced mineral nutrition in soybean and other crops, elucidates salt stress tolerance QTL mapping, which is another challenge that faces soybean and other crop production worldwide. The importance of soybean seed isoflavones from their biosynthesis and quantification methods to locations and variations in seeds, roots, and leaves, to their QTL mapping is discussed, as well as providing key information on lunasin, a bioactive anticancer peptide in soybean seeds that will help farmers and breeders to develop soybean cultivars with improved seed isoflavones and lunasin content. The book will be of interest to graduate students, academics, and researchers in the fields of genetic and QTL mapping of important agronomic traits in soybean and other crops.

Quantitative Trait Loci (QTL) for Salt Tolerance in Soybean and Physiological Response to Salt Stress During Early Growth Stage

Author : Cindy Massiel Lopez Ramirez
Publisher :
ISBN 13 :
Total Pages : 226 pages
Book Rating : 4.:/5 (14 download)

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Book Synopsis Quantitative Trait Loci (QTL) for Salt Tolerance in Soybean and Physiological Response to Salt Stress During Early Growth Stage by : Cindy Massiel Lopez Ramirez

Download or read book Quantitative Trait Loci (QTL) for Salt Tolerance in Soybean and Physiological Response to Salt Stress During Early Growth Stage written by Cindy Massiel Lopez Ramirez and published by . This book was released on 2016 with total page 226 pages. Available in PDF, EPUB and Kindle. Book excerpt: Soybean is a major cash crop used as a source of high-quality protein and oil. Salt stress is one of the main abiotic stresses causing significant yield losses in soybean, which is considered a moderately salt-sensitive crop. Breeding selection is a promising strategy to improve salt tolerance as soybean germplasm display wide variation in response to salinity stress. However, the physiological and genetic mechanisms for salt tolerance are not quite clear. The discovery of novel QTL/genes associated with salt tolerance facilitates the development of tolerant cultivars through marker-assisted selection (MAS). The objectives of this study were: 1) identify/confirm QTL associated with salt tolerance, and 2) evaluate progressive shoot ion accumulation in sensitive/tolerant genotypes and leaf physiological changes induced by salt stress during early growth stage. For the first objective, QTL mapping was performed using an F2:3 population from Jake (tolerant) x Ozark (sensitive). A major QTL was found on chromosome 3 linked to four SNP loci in the same genomic region previously reported, explaining 37% to 49% of the phenotypic variation in LSS, PDP, leaf chlorophyll and leaf chloride content. Additionally, a new minor QTL linked with two SNP markers was identified on chromosome 19 explaining 5% of leaf chlorophyll variation. These QTL and linked SNP markers will be useful in MAS for salt tolerance. For the second objective, two sensitive (Desha, Ozark) and two tolerant (Jake, Lee) cultivars were treated with NaCl and KCl at 80 mM and 120 mM from stage V1 to V5. The most adverse effects on tolerant and susceptible varieties, was caused by KCl compared to NaCl stress. Under KCl treatment, the tolerance capacity of the excluders was severely inhibited causing early death, while under NaCl stress, tolerant varieties were able to accumulate up to 2.3 and 3.8 times less leaf Cl- and leaf Na+, respectively, than the sensitive ones. Plant death occurred when shoot ion concentration reached 80,000 mg/kg and 18,000 mg/kg of Cl- and Na+, respectively, under 120 mM NaCl. Under 120 mM KCl, plants died when leaf Cl- content reached 120,000 mg/kg and leaf K+ content was over 100,000 mg/kg.

Soybean molecular breeding and genetics

Author : Guo-Liang Jiang
Publisher : Frontiers Media SA
ISBN 13 : 2832519229
Total Pages : 351 pages
Book Rating : 4.8/5 (325 download)

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Book Synopsis Soybean molecular breeding and genetics by : Guo-Liang Jiang

Download or read book Soybean molecular breeding and genetics written by Guo-Liang Jiang and published by Frontiers Media SA. This book was released on 2023-03-29 with total page 351 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Association Mapping in Plants

Author : Nnadozie C. Oraguzie
Publisher : Springer Science & Business Media
ISBN 13 : 0387360115
Total Pages : 290 pages
Book Rating : 4.3/5 (873 download)

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Book Synopsis Association Mapping in Plants by : Nnadozie C. Oraguzie

Download or read book Association Mapping in Plants written by Nnadozie C. Oraguzie and published by Springer Science & Business Media. This book was released on 2007-01-06 with total page 290 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides both basic and advanced understanding of association mapping and an awareness of population genomics tools to facilitate mapping and identification of the underlying causes of quantitative trait variation in plants. It acts as a useful review of the marker technology, the statistical methodology, and the progress to date. It also offers guides to the use of single nucleotide polymorphisms (SNPs) in association studies.

Plant Salt Tolerance

Author : Sergey Shabala
Publisher : Humana Press
ISBN 13 : 9781617799853
Total Pages : 0 pages
Book Rating : 4.7/5 (998 download)

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Book Synopsis Plant Salt Tolerance by : Sergey Shabala

Download or read book Plant Salt Tolerance written by Sergey Shabala and published by Humana Press. This book was released on 2012-08-16 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Soil salinity is destroying several hectares of arable land every minute. Because remedial land management cannot completely solve the problem, salt tolerant crops or plant species able to remove excessive salt from the soil could contribute significantly to managing the salinity problem. The key to engineering crops for salt tolerance lies in a thorough understanding of the physiological mechanisms underlying the adaptive responses of plants to salinity. Plant Salt Tolerance: Methods and Protocols describes recent advances and techniques employed by researchers to understand the molecular and ionic basis of salinity tolerance and to investigate the mechanisms of salt stress perception and signalling in plants. With chapters written by leading international scientists, this book covers nearly 30 different methods, such as microelectrode and molecular methods, imaging techniques, as well as various biochemical assays. Written in the highly successful Methods in Molecular BiologyTM series format, chapters contain introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and easily accessible, Plant Salt Tolerance: Methods and Protocols serves as an essential read for every student or researcher tackling various aspects of the salinity problem.

Molecular Aspects of Plant Salinity Stress and Tolerance

Author : Jen-Tsung Chen
Publisher : MDPI
ISBN 13 : 3036513809
Total Pages : 286 pages
Book Rating : 4.0/5 (365 download)

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Book Synopsis Molecular Aspects of Plant Salinity Stress and Tolerance by : Jen-Tsung Chen

Download or read book Molecular Aspects of Plant Salinity Stress and Tolerance written by Jen-Tsung Chen and published by MDPI. This book was released on 2021-09-08 with total page 286 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents the advances in plant salinity stress and tolerance, including mechanistic insights revealed using powerful molecular tools and multi-omics and gene functions studied by genetic engineering and advanced biotechnological methods. Additionally, the use of plant growth-promoting rhizobacteria in the improvement of plant salinity tolerance and the underlying mechanisms and progress in breeding for salinity-tolerant rice are comprehensively discussed. Clearly, the published data have contributed to the significant progress in expanding our knowledge in the field of plant salinity stress and the results are valuable in developing salinity-stress-tolerant crops; in benefiting their quality and productivity; and eventually, in supporting the sustainability of the world food supply.

Association Mapping for Soybean (glycine Max L. Merr.) Protein and Oil Content

Author : Joseph Najjar
Publisher :
ISBN 13 :
Total Pages : 228 pages
Book Rating : 4.:/5 (127 download)

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Book Synopsis Association Mapping for Soybean (glycine Max L. Merr.) Protein and Oil Content by : Joseph Najjar

Download or read book Association Mapping for Soybean (glycine Max L. Merr.) Protein and Oil Content written by Joseph Najjar and published by . This book was released on 2020 with total page 228 pages. Available in PDF, EPUB and Kindle. Book excerpt: Soybean [Glycine Max (L.) Merrill] is an important economic crop because of its high content of seed protein and oil. Seed oil and protein content are quantitative inherited traits. The genetics of seed protein and oil levels have been extensively studied, with 367 QTL reported for protein and 475 QTL reported for oil to date. Validation of such QTLs, and identification of easily-automatable molecular markers around these QTL will aid the progression of breeding for such traits. The focus of this research was to discover novel and verify previously reported QTL related to protein and/or oil content via Genome-Wide Association Study (GWAS). A total of 391 Plant Introduction (PI) lines from the Germplasm Resource Information Network (GRIN) database were used, representing contrasting seed protein and oil content. A single-row plot with one replication was grown in 3-meter rows in Fayetteville, AR in 2015, and with two replications in Fayetteville, AR, Stuttgart, AR, and Raleigh, NC in 2016 in a randomized-complete block design. Seed samples were assessed for protein and oil concentration using the Perten DA 7250™ NIR analyzer. To perform the GWAS and detect QTL controlling both protein and oil content in soybean, the resulting seed content phenotypic data was utilized in conjunction with publicly available SoySNP50k iSelect BeadChip database from the USDA-ARS Soybean Germplasm Collection. We detected significant markers previously reported for seed protein content on chromosome 5, 7, 9, 18, and 20, and on chromosomes 7, 8, 13, 15, 19, and 20 for seed oil content. In addition, we reported new QTL for seed protein on chromosomes 8, 10, 15, 16, and 20, and for oil on chromosomes 5, 7, 8, and 18. Future QTL mapping via use of bi-parental populations will be necessary to confirm QTL and validate the genes identified as novel in this study.

Advances in Statistical Methods for the Genetic Dissection of Complex Traits in Plants

Author : Yuan-Ming Zhang
Publisher : Frontiers Media SA
ISBN 13 : 2832543693
Total Pages : 278 pages
Book Rating : 4.8/5 (325 download)

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Book Synopsis Advances in Statistical Methods for the Genetic Dissection of Complex Traits in Plants by : Yuan-Ming Zhang

Download or read book Advances in Statistical Methods for the Genetic Dissection of Complex Traits in Plants written by Yuan-Ming Zhang and published by Frontiers Media SA. This book was released on 2024-01-26 with total page 278 pages. Available in PDF, EPUB and Kindle. Book excerpt: Genome-wide association studies (GWAS) have been widely used in the genetic dissection of complex traits. However, there are still limits in current GWAS statistics. For example, (1) almost all the existing methods do not estimate additive and dominance effects in quantitative trait nucleotide (QTN) detection; (2) the methods for detecting QTN-by-environment interaction (QEI) are not straightforward and do not estimate additive and dominance effects as well as additive-by-environment and dominance-by-environment interaction effects, leading to unreliable results; and (3) no or too simple polygenic background controls have been employed in QTN-by-QTN interaction (QQI) detection. As a result, few studies of QEI and QQI for complex traits have been reported based on multiple-environment experiments. Recently, new statistical tools, including 3VmrMLM, have been developed to address these needs in GWAS. In 3VmrMLM, all the trait-associated effects, including QTN, QEI and QQI related effects, are compressed into a single effect-related vector, while all the polygenic backgrounds are compressed into a single polygenic effect matrix. These compressed parameters can be accurately and efficiently estimated through a unified mixed model analysis. To further validate these new GWAS methods, particularly 3VmrMLM, they should be rigorously tested in real data of various plants and a wide range of other species.

Soybean Breeding

Author : Felipe Lopes da Silva
Publisher : Springer
ISBN 13 : 3319574337
Total Pages : 439 pages
Book Rating : 4.3/5 (195 download)

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Book Synopsis Soybean Breeding by : Felipe Lopes da Silva

Download or read book Soybean Breeding written by Felipe Lopes da Silva and published by Springer. This book was released on 2017-06-10 with total page 439 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book was written by soybean experts to cluster in a single publication the most relevant and modern topics in soybean breeding. It is geared mainly to students and soybean breeders around the world. It is unique since it presents the challenges and opportunities faced by soybean breeders outside the temperate world.

Genetics, Genomics, and Breeding of Soybean

Author : Kristin Bilyeu
Publisher : CRC Press
ISBN 13 :
Total Pages : 396 pages
Book Rating : 4.F/5 ( download)

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Book Synopsis Genetics, Genomics, and Breeding of Soybean by : Kristin Bilyeu

Download or read book Genetics, Genomics, and Breeding of Soybean written by Kristin Bilyeu and published by CRC Press. This book was released on 2010-06-03 with total page 396 pages. Available in PDF, EPUB and Kindle. Book excerpt: In addition to human consumption, the soybean is a major protein source in animal feeds and is becoming a major crop for biodiesel production. For many decades, plant breeders have used conventional breeding techniques to improve soybeans, yet with increasing demand, there is a need for more sophisticated techniques. Combining traditional research with modern molecular investigations on soybean, this volume explores the recent advances in soybean genome mapping, molecular breeding, genome sequencing, and bioinformatics. The book is an important tool for soybean researchers as well as researchers working with other crop species.

Soybean QTL Mapping and Candidate Gene Identification for Pythium Irregulare and Phytophthora Sojae Partial Resistance and Root-knot Nematode Induced Suppression of Gene Silencing

Download Soybean QTL Mapping and Candidate Gene Identification for Pythium Irregulare and Phytophthora Sojae Partial Resistance and Root-knot Nematode Induced Suppression of Gene Silencing PDF Online Free

Author : Brittany Jaye Nauth
Publisher :
ISBN 13 :
Total Pages : 129 pages
Book Rating : 4.:/5 (93 download)

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Book Synopsis Soybean QTL Mapping and Candidate Gene Identification for Pythium Irregulare and Phytophthora Sojae Partial Resistance and Root-knot Nematode Induced Suppression of Gene Silencing by : Brittany Jaye Nauth

Download or read book Soybean QTL Mapping and Candidate Gene Identification for Pythium Irregulare and Phytophthora Sojae Partial Resistance and Root-knot Nematode Induced Suppression of Gene Silencing written by Brittany Jaye Nauth and published by . This book was released on 2014 with total page 129 pages. Available in PDF, EPUB and Kindle. Book excerpt: Oomycete and nematode pathogens cause major damage to soybean worldwide. In response to an oomycete pathogen invasion, plants activate one or both of their qualitative and quantitative resistance pathways. Qualitative resistance involves the activation of R---genes and is known as the gene---for---gene resistance pathway. Although R---genes provide a strong level of expression for resistance towards individual pathogen strains or populations, pathogens readily adapt due to the selection pressure. Quantitative resistance, or partial resistance, is mediated by many genes, each of which contributes to a reduction in the level of disease, and is thought to be more durable in some host---pathogen systems than qualitative resistance. This study was conducted to gain insight into soybean interactions with three different root pathogens. A Conrad x Sloan F9:11 recombinant inbred population was evaluated to determine the location of quantitative trait loci (QTL) that confer partial resistance to Pythium irregulare. Two QTL on chromosomes 14 and 19 contributing to partial resistance against P. irregulare were identified in a greenhouse cup assay. In this second study, the potential for suppressing gene silencing was evaluated in transgenic soybean cultivars. Williams, Williams82, Conrad, and Sloan soybean lines with transgenic hairy roots were inoculated with root---knot nematode (RKN) juveniles. The feeding sites of the RKN were observed for the presence of a normally suppressed marker two weeks post inoculation. Suppression of gene silencing within the RKN feeding site was observed. A QTL on chromosome 18 was previously identified to contribute to partial resistance towards Phytophthora soaje. An analysis of eight genes within this QTL identified SNPs and deletions in promoter sequences of the genes from the resistant and susceptible soybean parent lines. These genes will serve as excellent targets for functional analysis to study the response in soybean to infection by oomycete root pathogens.

Handbook of Maize: Its Biology

Author : Jeff L. Bennetzen
Publisher : Springer Science & Business Media
ISBN 13 : 0387794182
Total Pages : 593 pages
Book Rating : 4.3/5 (877 download)

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Book Synopsis Handbook of Maize: Its Biology by : Jeff L. Bennetzen

Download or read book Handbook of Maize: Its Biology written by Jeff L. Bennetzen and published by Springer Science & Business Media. This book was released on 2008-12-25 with total page 593 pages. Available in PDF, EPUB and Kindle. Book excerpt: Handbook of Maize: Its Biology centers on the past, present and future of maize as a model for plant science research and crop improvement. The book includes brief, focused chapters from the foremost maize experts and features a succinct collection of informative images representing the maize germplasm collection.

Plant Aquaporins

Author : François Chaumont
Publisher : Springer
ISBN 13 : 3319493957
Total Pages : 354 pages
Book Rating : 4.3/5 (194 download)

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Book Synopsis Plant Aquaporins by : François Chaumont

Download or read book Plant Aquaporins written by François Chaumont and published by Springer. This book was released on 2017-02-07 with total page 354 pages. Available in PDF, EPUB and Kindle. Book excerpt: Aquaporins are channel proteins that facilitate the diffusion of water and small uncharged solutes across cellular membranes. Plant aquaporins form a large family of highly divergent proteins that are involved in many different physiological processes. This book will summarize the recent advances regarding plant aquaporins, their phylogeny, structure, substrate specificity, mechanisms of regulation and roles in various important physiological processes related to the control of water flow and small solute distribution at the cell, tissue and plant level in an ever-changing environment.