scholarly journals Genetic Dissection for Maize Forage Digestibility Traits in a Multi-Parent Advanced Generation Intercross (MAGIC) Population

Agronomy ◽  
2021 ◽  
Vol 11 (1) ◽  
pp. 104
Author(s):  
Ana Lopez-Malvar ◽  
Rosa Ana Malvar ◽  
Ana Butron ◽  
Pedro Revilla ◽  
Sonia Pereira-Crespo ◽  
...  
Keyword(s):  
Organic Matter ◽  
Plant Cell Wall ◽  
Phenotypic Variability ◽  
Neutral Detergent Fiber ◽  
Wall Material ◽  
Forage Digestibility ◽  
A Genome ◽  
Limited Digestion ◽  
Advanced Generation ◽  
Magic Population

Forage feedstock is the greatest source of energy for livestock. Unfortunately, less than 50% of their fiber content is actually digested and assimilated by the ruminant animals. This recalcitrance is mainly due to the high concentration of plant cell wall material and to the limited digestion of the fiber by the microorganisms. A Genome-Wide Association Study (GWAS) was carried out in order to identify Single Nucleotide Polymorphisms (SNPs) associated with forage digestibility traits in a maize Multi-Parent Advanced Generation Intercross (MAGIC) population. We identified seven SNPs, corresponding to five Quantitative Trait Loci (QTL), associated to digestibility of the organic matter, 11 SNPs, clustered in eight QTLs, associated to Neutral Detergent Fiber (NDF) content and eight SNPs corresponding with four QTL associated with Acid Detergent Fiber (ADF). Candidate genes under the QTL for digestibility of the organic matter could be the ones involved in pectin degradation or phenylpropanoid pathway. Transcription factor genes were also proposed for the fiber QTL identified, in addition to genes induced by oxidative stress, or a gene involved in lignin modifications. Nevertheless, for the improvement of the traits under study, and based on the moderate heritability value and low percentage of the phenotypic variability explained by each QTL, a genomic selection strategy using markers evenly distributed across the whole genome is proposed.

Measurement of the quantity and composition of digesta in the reticulo-rumen of sheep fed on a roughage diet

1983 ◽  
Vol 34 (3) ◽  
pp. 307 ◽  
Author(s):  
JK Egan ◽  
GR Pearce ◽  
PT Doyle ◽  
R Thomas
Keyword(s):  
Cell Wall ◽  
Organic Matter ◽  
Plant Cell ◽  
Dry Matter ◽  
Plant Cell Wall ◽  
Sampling Procedure ◽  
Wall Material ◽  
Cell Wall Material ◽  
Plastic Tube ◽  
Slaughter Method

In two experiments, estimates of the quantity and composition of digesta in the reticula-rumen of sheep given a roughage diet were made using a recently published marker technique. These estimates were compared with measurements made on the same sheep at slaughter. Estimates of digesta dry matter were influenced by the method of obtaining digesta samples from the rumen. When samples were withdrawn through a plastic tube, the resultant estimates underestimated the values obtained at slaughter by an average of 6%. An alternative sampling procedure is described which provided estimates within 1.5 % of values at slaughter. Values obtained for the organic matter, plant cell wall, and nitrogen content of digesta were similar for the slaughter method and the marker technique, irrespective of the method of sampling. In both experiments, the marker technique consistently underestimated the quantity of water in the rumen by 2-19 %. The importance of measures made on digesta load in the reticulo-rumen is illustrated by an examination of the variability between sheep in digestion of plant cell wall material.

scholarly journals Dynamic QTL analysis for developmental behavior of cell wall components and forage digestibility in maize (Zea mays L.)

2020 ◽  
Author(s):  
Kun Li ◽  
Xue Yang ◽  
Xiaogang Liu ◽  
Xiaojiao Hu ◽  
Yujin Wu ◽  
...  
Keyword(s):  
Cell Wall ◽  
Plant Cell Wall ◽  
Neutral Detergent Fiber ◽  
Growth Stages ◽  
Cell Wall Components ◽  
Conditional Qtl ◽  
Forage Digestibility ◽  
Pleiotropic Qtl ◽  
Stalk Strength ◽  
Wall Components

Abstract Background Cell wall architecture plays a key role in stalk strength and forage digestibility. Lignin, cellulose and hemicellulose are the three main components of the plant cell wall and can impact stalk quality by affecting cell wall structure and strength. To explore cell wall development during secondary cell wall lignification in maize stalks, conventional and conditional genetic mappings was used to identify the dynamic quantitative trait locus (QTL) for cell wall components and digestibility traits in five growth stages after silking. Results Acid detergent lignin (ADL), cellulose (CEL), Acid detergent fiber (ADF), neutral detergent fiber (NDF), and in vitro dry matter digestibility (IVDMD) of stalk were evaluated in a maize recombinant inbred line (RIL) population. The cell wall components gradually increased in the 10–40 days after silking (DAS), reached a maximum at 30–40 DAS, and then steadily decreased. IVDMD decreased over the initial 40 DAS and then increased slightly. Seventy-two QTL were identified for five traits and each accounted for 3.48–24.04% of the phenotypic resistance variation. Twenty-six conditional QTL were detected using conditional QTL mapping. 22 out of 24 conditional QTL were found for stages III|II and V|IV. Six QTL hotspots were found localized in bins 1.08, 2.04, 2.07, 7.03, 8.05, and 9.03 in the maize genome. Conclusion The unconditional pleiotropic QTL in bins 1.08 and 8.05 were also associated with stalk strength. Furthermore, several pleiotropic QTL for cell wall and digestibility were found not associated with stalk strength. A simultaneous improvement in forage digestibility and lodging resistance can be achieved by pyramiding multiple effective QTL identified in the present study.

scholarly journals Association mapping for maize stover yield and saccharification efficiency using a multiparent advanced generation intercross (MAGIC) population

2021 ◽  
Vol 11 (1) ◽  
Author(s):  
A. López-Malvar ◽  
A. Butron ◽  
R. A. Malvar ◽  
S. J. McQueen-Mason ◽  
L. Faas ◽  
...  
Keyword(s):  
Association Mapping ◽  
Genome Wide Association Study ◽  
Recombinant Inbred Lines ◽  
Nucleotide Polymorphisms ◽  
Maize Stover ◽  
A Genome ◽  
Stover Yield ◽  
Saccharification Efficiency ◽  
Advanced Generation ◽  
Magic Population

AbstractCellulosic ethanol derived from fast growing C4 grasses could become an alternative to finite fossil fuels. With the potential to generate a major source of lignocellulosic biomass, maize has gained importance as an outstanding model plant for studying the complex cell wall network and also to optimize crop breeding strategies in bioenergy grasses. A genome-wide association study (GWAS) was conducted using a subset of 408 Recombinant Inbred Lines (RILs) from a Multi-Parent Advanced Generation Intercross (MAGIC) Population in order to identify single nucleotide polymorphisms (SNPs) associated with yield and saccharification efficiency of maize stover. We identified 13 SNPs significantly associated with increased stover yield that corresponded to 13 QTL, and 2 SNPs significantly associated with improved saccharification efficiency, that could be clustered into 2 QTL. We have pointed out the most interesting SNPs to be implemented in breeding programs based on results from analyses of averaged and yearly data. Association mapping in this MAGIC population highlight genomic regions directly linked to traits that influence the final use of maize. Markers linked to these QTL could be used in genomic or marker-assisted selection programs to improve biomass quality for ethanol production. This study opens a possible optimisation path for improving the viability of second-generation biofuels.

scholarly journals Nutritional impact of partial or complete replacement of clover hay by untreated or biologically treated rice straw and corn stalks on: 1. growth performance and economic evaluation of growing New Zealand (NZW) White rabbits

2019 ◽  
Vol 43 (1) ◽  
Author(s):  
Hamed A. A. Omer ◽  
Sawsan M. Ahmed ◽  
Roshdy I. El-Kady ◽  
Aly A. El-Shahat ◽  
Mahmoud Y. El-Ayek ◽  
...  
Keyword(s):  
Organic Matter ◽  
New Zealand ◽  
Trichoderma Reesei ◽  
Rice Straw ◽  
Pleurotus Ostreatus ◽  
Biological Treatment ◽  
Neutral Detergent Fiber ◽  
Feed Conversion ◽  
Biological Treatments ◽  
Daily Gain

Abstract Background Agriculture by-products are considered a great potential value for utilization by ruminants as well as rabbits. They usually can be the maintenance and part of the production requirements. However, in developing countries, as well as in Egypt, animals suffer from shortage of feeds that are continuously increasing in costs. In general, biological treatments were shown to be the most effective and improved chemical composition of rice straw or corn stalks. Method This work aimed to investigate the possible ways of utilizing rice straws or corn stalks in rabbit feeding. The field work is designed to study the effect of biological treatment of Pleurotus ostreatus cultivated on rice straws and Trichoderma reesei cultivated on corn stalks and replacing clover hay by rice straws and corn stalks at levels of 0, 33, 66, and 100% either without or with microbes adding. Seventy-eight New Zealand White (NZW) rabbits aged 4–5 weeks (565 ± 13.57 g) were randomly divided into thirteen equal experimental groups. Results Untreated rice straws or biologically treated with Pleurotus ostreatus increased their contents of crude protein (CP) by 178.75 and 224.5% and nitrogen-free extract (NFE) by 6.30 and 24.53, respectively. Meanwhile, crude fiber (CF) content was reduced by 31.32 and 56.75%, and organic matter content was decreased by 2.81 and 5.51%, respectively, in comparison with the raw rice straws. Also, biological treatment of rice straws caused a decrease in values of neutral detergent fiber (NDF), acid detergent fiber (ADF), acid detergent lignin (ADL), and hemicellulose contents in comparison with either raw or treated rice straws. Furthermore, biological treatment with Trichoderma reesei realized a decrease in organic matter (OM), CF, NDF, and ADF and increased CP and ash contents in corn stalks. NFE content of corn stalks was decreased as a result of treatment without or with Trichoderma reesei experimental rations by 11.95% and 3.82% compared to raw corn stalks (CS). Biological treatments with fungi significantly (P < 0.05) improved average daily gain (ADG) and feed conversion. ADG and feed conversion were significantly (P < 0.05) improved when rabbits were fed diets containing rice straw (RS) compared to that fed CS. Rabbits fed diets replaced clover hay (CH) with 33% or 66% of RS or CS significantly increased ADG compared to control and that replaced 100% of both RS and CS containing rations. Levels of replacing had no significant effect on their dry matter intake (DMI) values. The highest improvement in feed conversion was recorded with rabbits that received diets replaced 33% of berseem hay (BH) by RS or CS, followed by that replaced 66% of BH by RS or CS. There were significantly interactions between biological treatments (T), roughage source (S), and replacement levels (L) (T × S × L) only on ADG. The best fed conversion was realized by rabbits fed diet replaced BH with 33% of RS that are treated by Pleurotus ostreatus (4.05 g DMI/g gain). Rabbits fed 33% biologically treated rice straw with Pleurotus ostreatus showed the highest economic efficiency (179%) followed by rabbits that received 33% of both rice straws treated without Pleurotus ostreatus and rabbits that received corn stalks biologically treated with Trichoderma reesei (161%). Conclusion Biological treatments of rice straws by Pleurotus ostreatus or corn stalks by Trichoderma reesei were safe, and it improves their chemical analysis and improved both daily gain and feed conversion, decreasing the costing of diet formulation which consequently decreased the price of 1-kg live body weight.

EFFECT OF STRUCTURAL AND CHEMICAL FACTORS OF FORAGES ON POTENTIALLY DIGESTIBLE FIBER, INTAKE, AND TRUE DIGESTIBILITY BY RUMINANTS

1988 ◽  
Vol 68 (3) ◽  
pp. 787-799 ◽  
Author(s):  
V. GIRARD ◽  
G. DUPUIS
Keyword(s):  
Cell Wall ◽  
Dry Matter ◽  
Plant Cell Wall ◽  
Neutral Detergent Fiber ◽  
Optimum Number ◽  
Apparent Digestibility ◽  
Cool Season ◽  
Dry Matter Digestibility ◽  
True Digestibility

In view of the large variation found in plant cell wall digestibilities with ruminants, an attempt was made to group 124 feeds into different lignification classes (clusters) on the basis of chemical characteristics. Each feed cluster was described using a structural coefficient [Formula: see text] that related the potentially digestible fiber (PDF, %) to the ratio between lignin and cell wall volume. The optimum number of clusters was determined iteratively by performing a regression of the apparent digestibility of dry matter at maintenance level (DDM1, %) against the PDF and cell soluble (SOL, %) contents of feeds. The [Formula: see text] coefficients varied from 0.05 (grains, N = 13) to 1.85 (corn silage, N = 3) and increased with the maturity of the grasses from 0.88 (legumes, vegetative cool season grasses, N = 26) to 1.33 (mature, cool season grasses, N = 19). Predicted PDF were closely correlated (r > 0.9, P < 0.01) to in vitro cell wall disappearances (IVCWD). Apparently digestible cell wall in four grasses and four legumes increased linearly with 96-h IVCWD and standard error (SE) was similar to the SE of predicted apparent digestible SOL from SOL concentrations. Assuming that similarity between SE could be also observed in larger samples, PDF and SOL were used in summative equations to predict apparent dry matter digestibility. DDM1 discounted for intake (DDM1 – 4, %) was regressed against SOL and PDF concentrations of 87 feeds:[Formula: see text]with ds and df, the true digestibilities of SOL and PDF. Estimates of ds and df were 0.98 and 0.95 for a zero-production (maintenance) level of intake, and 0.91 and 0.79 for an intake level four times maintenance. Since the true digestibility of the PDF component was only 4% – 13% lower than that of the cell soluble component, the concentration of PDF in cell wall was the major determinant in the variation in apparent digestibility of forages. Key words: lignin, neutral detergent fiber, true digestibility, cluster analysis, feeds

Genome-wide association analysis of resistance to Pseudoperonospora cubensis in citron watermelon

Plant Disease ◽  
2021 ◽  
Author(s):  
Dennis Katuuramu ◽  
Sandra Branham ◽  
Amnon Levi ◽  
Patrick Wechter
Keyword(s):  
Candidate Genes ◽  
Genome Wide Association Study ◽  
Citrullus Lanatus ◽  
Phenotypic Variability ◽  
Germplasm Collection ◽  
Snp Markers ◽  
Genome Wide Association ◽  
Pseudoperonospora Cubensis ◽  
Genome Wide ◽  
A Genome

Cultivated sweet watermelon (Citrullus lanatus) is an important vegetable crop for millions of people around the world. There are limited sources of resistance to economically important diseases within C. lanatus, whereas Citrullus amarus has a reservoir of traits that can be exploited to improve C. lanatus for resistance to biotic and abiotic stresses. Cucurbit downy mildew (CDM), caused by Pseudoperonospora cubensis, is an emerging threat to watermelon production. We screened 122 C. amarus accessions for resistance to CDM over two tests (environments). The accessions were genotyped by whole-genome resequencing to generate 2,126,759 single nucleotide polymorphic (SNP) markers. A genome-wide association study was deployed to uncover marker-trait associations and identify candidate genes underlying resistance to CDM. Our results indicate the presence of wide phenotypic variability (1.1 - 57.8%) for leaf area infection, representing a 50.7-fold variation for CDM resistance across the C. amarus germplasm collection. Broad-sense heritability estimate was 0.55, implying the presence of moderate genetic effects for resistance to CDM. The peak SNP markers associated with resistance to P. cubensis were located on chromosomes Ca03, Ca05, Ca07, and Ca11. The significant SNP markers accounted for up to 30% of the phenotypic variation and were associated with promising candidate genes encoding disease resistance proteins, leucine-rich repeat receptor-like protein kinase, and WRKY transcription factor. This information will be useful in understanding the genetic architecture of the P. cubensis-Citrullus spp. patho-system as well as development of resources for genomics-assisted breeding for resistance to CDM in watermelon.

scholarly journals Nutritional Quality and In Vitro Rumen Fermentation Characteristics of Silage Prepared with Lucerne, Sweet Maize Stalk, and Their Mixtures

Agriculture ◽  
2021 ◽  
Vol 11 (12) ◽  
pp. 1205
Author(s):  
Musen Wang ◽  
Fujin Zhang ◽  
Xinxin Zhang ◽  
Ying Yun ◽  
Lei Wang ◽  
...  
Keyword(s):  
Organic Matter ◽  
Nutritional Quality ◽  
Dry Matter ◽  
Rumen Fermentation ◽  
Gas Production ◽  
Neutral Detergent Fiber ◽  
Ruminal Fermentation ◽  
Fresh Matter ◽  
In Vitro Rumen Fermentation

The objective of this work was to evaluate the pH, chemical composition, minerals, vitamins, and in vitro rumen fermentation characteristics of silage prepared with lucerne, sweet maize stalk (MS), and their mixtures. Freshly chopped lucerne and MS were combined in ratios of 100:0 (M0, control), 80:20 (M20), 60:40 (M40), 40:60 (M60), 20:80 (M80), and 0:100 (M100) on a fresh matter basis. Each treatment was prepared in triplicate, and a total of eighteen silos were fermented for 65 days. After 65 days of fermentation, the pH values in M0, M20, M40, M60, M80, and M100 silages were 5.47, 4.84, 4.23, 4.13, 3.79, and 3.61, respectively. As the MS proportion in the mixtures increased, silage K, Ca, P, Na, Fe, and Cu concentrations linearly decreased (p < 0.001) and so did vitamins B5 and K1 and α-tocopherol. In vitro rumen dry matter and organic matter degradability, pH, ammonia, total volatile fatty acid, and gas production linearly decreased (p < 0.01), while neutral detergent fiber concentration linearly increased (p < 0.001), with increasing proportion of MS. The in vitro dry matter and organic matter degradability rapidly decreased when the MS percentage was ≥60%. In conclusion, the M40 silage is the most suitable for livestock utilization in local forage production considering the balance of silage pH, nutritional quality, and in vitro ruminal fermentation characteristics.

scholarly journals Genetics of Germination and Seedling Traits under Drought Stress in a MAGIC Population of Maize

Plants ◽  
2021 ◽  
Vol 10 (9) ◽  
pp. 1786
Author(s):  
Soumeya Rida ◽  
Oula Maafi ◽  
Ana López-Malvar ◽  
Pedro Revilla ◽  
Meriem Riache ◽  
...  
Keyword(s):  
Drought Tolerance ◽  
Genome Wide Association Study ◽  
Genetic Regulation ◽  
Breeding Programs ◽  
Seedling Traits ◽  
Genome Wide ◽  
A Genome ◽  
Positive Correlations ◽  
Genomic Regions ◽  
Magic Population

Drought is one of the most detrimental abiotic stresses hampering seed germination, development, and productivity. Maize is more sensitive to drought than other cereals, especially at seedling stage. Our objective was to study genetic regulation of drought tolerance at germination and during seedling growth in maize. We evaluated 420 RIL with their parents from a multi-parent advanced generation inter-cross (MAGIC) population with PEG-induced drought at germination and seedling establishment. A genome-wide association study (GWAS) was carried out to identify genomic regions associated with drought tolerance. GWAS identified 28 and 16 SNPs significantly associated with germination and seedling traits under stress and well-watered conditions, respectively. Among the SNPs detected, two SNPs had significant associations with several traits with high positive correlations, suggesting a pleiotropic genetic control. Other SNPs were located in regions that harbored major QTLs in previous studies, and co-located with QTLs for cold tolerance previously published for this MAGIC population. The genomic regions comprised several candidate genes related to stresses and plant development. These included numerous drought-responsive genes and transcription factors implicated in germination, seedling traits, and drought tolerance. The current analyses provide information and tools for subsequent studies and breeding programs for improving drought tolerance.

scholarly journals The type II and X cellulose-binding domains of Pseudomonas xylanase A potentiate catalytic activity against complex substrates by a common mechanism

1999 ◽  
Vol 342 (2) ◽  
pp. 473-480 ◽  
Author(s):  
Jaitinder GILL ◽  
Jane E. RIXON ◽  
David N. BOLAM ◽  
Simon MCQUEEN-MASON ◽  
Peter J. SIMPSON ◽  
...  
Keyword(s):  
Microcrystalline Cellulose ◽  
Plant Cell Wall ◽  
Catalytic Domain ◽  
Wall Material ◽  
Common Mechanism ◽  
Type Ii ◽  
Binding Domains ◽  
Covalently Linked ◽  
Cellulose Binding ◽  
Internal Domain

Xylanase A (Pf Xyn10A), in common with several other Pseudomonas fluorescens subsp. cellulosa polysaccharidases, consists of a Type II cellulose-binding domain (CBD), a catalytic domain (Pf Xyn10ACD) and an internal domain that exhibits homology to Type X CBDs. The Type X CBD of Pf Xyn10A, expressed as a discrete entity (CBDX) or fused to the catalytic domain (Pf Xyn10A′), bound to amorphous and bacterial microcrystalline cellulose with a Ka of 2.5×105 M-1. CBDX exhibited no affinity for soluble forms of cellulose or cello-oligosaccharides, suggesting that the domain interacts with multiple cellulose chains in the insoluble forms of the polysaccharide. Pf Xyn10A′ was 2-3 times more active against cellulose-hemicellulose complexes than Pf Xyn10ACD; however, Pf Xyn10A′ and Pf Xyn10ACD exhibited the same activity against soluble substrates. CBDX did not disrupt the structure of plant-cell-wall material or bacterial microcrystalline cellulose, and did not potentiate Pf Xyn10ACD when not covalently linked to the enzyme. There was no substantial difference in the affinity of full-length Pf Xyn10A and the enzyme's Type II CBD for cellulose. The activity of Pf Xyn10A against cellulose-hemicellulose complexes was similar to that of Pf Xyn10A′, and a derivative of Pf Xyn10A in which the Type II CBD is linked to the Pf Xyn10ACD via a serine-rich linker sequence [Bolam, Cireula, McQueen-Mason, Simpson, Williamson, Rixon, Boraston, Hazlewood and Gilbert (1998) Biochem J. 331, 775-781]. These data indicate that CBDX is functional in Pf Xyn10A and that no synergy, either in ligand binding or in the potentiation of catalysis, is evident between the Type II and X CBDs of the xylanase.

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