scholarly journals Identification of genome compositions in allopolyploid species of the genus Elymus(Poaceae: Triticeae) in the Asian part of Russia by CAPS analysis

2020 ◽  
Vol 24 (2) ◽  
pp. 115-122 ◽  
Author(s):  
A. V. Agafonov ◽  
E. V. Shabanova (Kobozeva) ◽  
S. V. Asbaganov ◽  
A. V. Mglinets ◽  
V. S. Bogdanova
Keyword(s):  
Economic Value ◽  
Electrophoretic Analysis ◽  
Single Copy ◽  
Genomic Constitution ◽  
The North ◽  
Genomic Species ◽  
Gene Coding ◽  
Asiatic Species ◽  
Remote Hybridization ◽  
Hordeum Species

The genus ElymusL., together with wheat, rye, and barley, belongs to the tribe Triticeae. Apart from its  economic value, this tribe is characterized by abundance of polyploid taxa formed in the course of remote hybridization. Single-copy nuclear genes are convenient markers for identification of source genomes incorporated into  polyploids. In the present work, a CAPS-marker is developed to distinguish basic St, H, and Y genomes comprising  polyploid genomes of Asiatic species of the genus Elymus. The test is based on electrophoretic analysis of restriction patterns of a PCR-amplified fragment of the gene coding for beta-amylase. There are about 50 Elymusspecies  in Russia, and most of them are supposed to possess one of three haplome combinations, StH, StY and StHY. Boreal  StH-genomic species endemic for Russia are the least studied. On the basis of nucleotide sequences from public  databases, TaqI restrictase was selected, as it produced patterns of restriction fragments specific for St, H, and Y  haplomes easily recognizable in agarose gel. A sample of 68 accessions belonging to 32 species was analyzed.  In 15 species, the earlier known genomic constitutions were confirmed, but in E. kamojithis assay failed to reveal  the presence of H genome. This unusual H  genome was suggested to originate from a different Hordeum species. In 16 species, genomic constitutions were identified for the first time. Fifteen accessions from Asian Russia  possessed the genomic constitution StStHH, and E. amurensis, phylogenetically close to the StY-genomic species  E. ciliaris, had the genomic constitution StStYY. It is inferred that the center of species diversity of the StH-genomic  group is shifted to the north as compared to the center of origin of StY-genomic species, confined to China.

Demand for Herbaceous Ornamental Germplasm from the North Central Regional Plant Introduction Station

HortScience ◽  
1996 ◽  
Vol 31 (4) ◽  
pp. 650f-650
Author(s):  
Mark P. Widrlechner
Keyword(s):  
Active Sites ◽  
Economic Value ◽  
Plant Introduction ◽  
Expert Advice ◽  
Recent Analysis ◽  
Public And Private ◽  
North Central ◽  
The North ◽  
North Central Regional ◽  
Crop Germplasm

In 1991, the USDA–ARS North Central Regional Plant Introduction Station made available for distribution 129 accessions of germplasm representing 31 genera of herbaceous ornamentals. This number increased to 329 accessions of 42 genera by 1995. During 1991–95, more than 500 seed packets were distributed to fulfill requests for these plants received from a diverse array of public and private researchers. An analysis of this demand together with expert advice from Crop Germplasm Committees and technical considerations, such as ease of culture and seed production, can help set priorities to plan germplasm regeneration to meet future demand. A recent analysis of demand at U.S. National Plant Germplasm System active sites indicated that demand ranging between 0.23 and 0.97 distributions per available accession per year was typical. Of the 42 ornamental genera analyzed in this study, 9 were demanded more frequently than was typical, 10 were demanded less frequently, with the remainder in the typical range. In order of increasing frequency, the nine genera with the highest distribution rates were Verbena, Gypsophila, Echinacea, Lapeirousia, Delphinium, Cerastium, Baptisia, Lilium, and Tanacetum. Six of these genera are represented only by a single available accession. Notably, Echinacea and Tanacetum are of research interest both as ornamentals and as medicinal/industrial crops. This poster gives a brief overview of the economic value of these genera, display the results of the demand analysis, discuss the results relative to recommendations from Crop Germplasm Committees and requestors, and consider how demand can shape management plans for the acquisition and regeneration of ornamental germplasm.

scholarly journals Highly Efficient Biosynthesis of Indole-3-acetic acid by Enterobacter xiangfangensis BHW6

2020 ◽  
Author(s):  
Bi-Xian Zhang ◽  
Ying-Ying Wang ◽  
Xiaomei Hu
Keyword(s):  
Acetic Acid ◽  
Economic Value ◽  
Pyruvate Decarboxylase ◽  
Genomic Analysis ◽  
Rrna Gene ◽  
H Nmr ◽  
Gene Coding ◽  
Key Enzyme ◽  
Indole 3 Acetic Acid ◽  
Iaa Biosynthesis

Abstract Background: Indole-3-acetic acid (IAA) plays an important role in the growth and development of plants. Various bacteria in the rhizosphere are capable to produce IAA that acts as a signaling molecule for the communication between plants and microbes to promote the plant growth. Due to the low IAA content and various interfering analogs, it is difficult to detect and isolate IAA from microbial secondary metabolites. Results: A predominant strain with a remarkable capability to secrete IAA was identified as Enterobacter xiangfangensis BHW6 based on 16S rRNA gene sequence, the determination of average nucleotide identity (ANI) and digital DDH (dDDH). The maximum IAA content (134-1129 μg/mL) was found with the addition of 0.2-15 g/L of L-tryptophan at pH 5 for 6 days, which was 4-40 fold higher than that in the absence of L-tryptophan. The highest yield of IAA was obtained at the stationary phase of bacterial growth. An acidic culture medium was preferred for the IAA biosynthesis of the strain. The strain was tolerant and stable to produce IAA in the presence 2.5%-5% (w/v) of NaCl. IAA was then isolated through column chromatography with a mobile phase of hexane/ethyl acetate (1/2, v/v) and characterized by 1H Nuclear Magnetic Resonance (1H NMR). Conclusions: A remarkable IAA production was obtained from E. xiangfangensis BHW6 that was tryptophan–dependent. According to genomic analysis, the ipdC gene coding for the key enzyme (indole-3-pyruvate decarboxylase) was identified indicating that IAA biosynthesis was mainly through the indole-3-pyruvia acid (IPyA) pathway, which was further confirmed by intermediate assay. E. xiangfangensis BHW6 with an important economic value has great prospect in agricultural and industrial application.

scholarly journals The intron-containing gene for yeast profilin (PFY) encodes a vital function

1988 ◽  
Vol 8 (12) ◽  
pp. 5108-5115
Author(s):  
V Magdolen ◽  
U Oechsner ◽  
G Müller ◽  
W Bandlow
Keyword(s):  
Diploid Cell ◽  
Single Copy ◽  
Actin Binding ◽  
Gene Copy ◽  
Tetrad Analysis ◽  
Vital Function ◽  
Primary Transcript ◽  
Gene Coding ◽  
Gene Maps ◽  
Coding Capacity

The gene coding for profilin (PFY), an actin-binding protein, occurs as a single copy in the haploid genome of Saccharomyces cerevisiae and is required for spore germination and cell viability. Displacement of one gene copy in a diploid cell by a nonfunctional allele is recessively lethal: tetrad analysis yields only two viable spores per ascus. The PFY gene maps on chromosome XV and is linked to the ADE2 marker. The primary transcript of about 1,000 bases contains an intron of 209 bases and is spliced into a messenger of about 750 bases. The intron was identified by comparison with a cDNA clone, which also revealed the 3' end of the transcript. The 5' end of the mRNA was mapped by primer elongation. The gene is transcribed constitutively and has a coding capacity for a protein of 126 amino acids. The deduced molecular weight of

Scour Depth Prediction for Asa Dam Bridge, Ilorin, Using Artificial Neural Network

2020 ◽  
Vol 47 ◽  
pp. 53-62
Author(s):  
Samson Olalekan Odeyemi ◽  
Mutiu Adelodun Akinpelu ◽  
Rasheed Abdulwahab ◽  
Kazeem Adeshina Dauda ◽  
Stella Chris-Ukaegbu
Keyword(s):  
Economic Value ◽  
Economic Life ◽  
Scour Depth ◽  
Bridge Scour ◽  
Average Flow Velocity ◽  
Sediment Size ◽  
The North ◽  
Depth Prediction ◽  
Pile Cap ◽  
Artificial Neural

Bridge Scour is the localized loss of the geomaterials around the foundation of a bridge as a result of the movement of water around it. Scour is a great risk to the stability of a bridge’s foundation, thus leading to collapse, loss of lives and setback in a nation’s socio-economic life. Artificial Neural Networks (ANN) are collections of simple, highly connected processing elements that learn according to sets of input parameters and use that to simulate the networks of nerve cells of humans or animal central nervous system. The Asa Dam Bridge, one of the longest bridges in Ilorin, Kwara State, Nigeria, has five (5) spans of 20m each. The bridge connects Ilorin to the Ogbomosho Express way (leading to the western part of the country) and the Eyenkorin-Jebba road (leading to the north). Thus, the bridge has a high economic value. In this research, factors such as flow depth, average flow velocity of the river and median sediment size were investigated to show how they affect the depth of scour around the bridge pile foundation. Data were taken for a period of 48 weeks and ANN was applied to predict and generate a model that shows how these factors relate to the scour depth of the riverbed. The model revealed that the hydraulic parameters and soil grading around the pile cap of Asa River Bridge bears significant influence on the scour depth of its foundation. The model was compared with five (5) other established scour equations.

scholarly journals Estimating the aboveground carbon sequestration and its economic value (case study: Iranian Caspian forests)

2017 ◽  
Vol 63 (No. 11) ◽  
pp. 511-518 ◽  
Author(s):  
Mohammadi Zohreh ◽  
Limaei Soleiman Mohammadi ◽  
Lohmander Peter ◽  
Olsson Leif
Keyword(s):  
Carbon Sequestration ◽  
Net Present Value ◽  
Economic Value ◽  
Volume Growth ◽  
Allometric Equation ◽  
Present Value ◽  
Diameter Increment ◽  
Aboveground Carbon ◽  
The North ◽  
Annual Volume

The aim of the study is to estimate the aboveground carbon sequestration and to determine the economic value of forests in carbon sequestration as a way of mitigating climate change. This research was conducted at Asalem forests in the north of Iran. In order to estimate the amount of annual carbon sequestration, the annual volume growth of stand was determined using the diameter increment data and tariff. The amount of carbon sequestration was estimated based on wood density and using the allometric equation. The carbon model was obtained for each species. The value of sequestrated carbon in stumpage and the net present value of carbon sequestration were determined in order to estimate the economic value of carbon sequestration. Results indicated that the annual volume growth per hectare and the carbon stored are 6.023 m<sup>3</sup>·yr<sup>–1</sup> and 2.307 t·ha<sup>–1</sup>, respectively. Finally, the carbon sequestration value of stumpage and the net present value of carbon sequestration are 11,023.753 and 790.361 (10,000 IRR·t<sup>–1</sup>·ha<sup>–1</sup>), respectively. Our results are very useful in estimating the total economic value of Asalem forests and other Iranian Caspian forests in the future.

Genomic constitution and phylogenetic position of several New Zealand Triticeae species revealed by two single copy nuclear genes

2011 ◽  
Vol 59 (1) ◽  
pp. 1 ◽  
Author(s):  
Aimee G. Oliver ◽  
Kara Harnish ◽  
Genlou Sun
Keyword(s):  
New Zealand ◽  
North American ◽  
Diploid Species ◽  
Single Copy ◽  
Nuclear Genes ◽  
Phylogenetic Position ◽  
Genome Constitution ◽  
Elymus Species ◽  
New Zealand Flora ◽  
Hordeum Species

Three genera of Triticeae, Elymus, Stenostachys and Australopyrum, are described in the New Zealand flora. Cytological analyses suggested that five basic genomes (St, H, Y, P and W) donated by different diploid species in different combinations exist in the genera Elymus and Stenostachys, whereas Australopyrum species contain the W genome only. Morphological and cytogenetic data suggested that the genome constitution for both E. apricus and E. multiflorus is StYW. Chloroplast DNA and ITS data supported the genome constitution of these Elymus species, but the HW genome constitution was assigned to the Stenostachys species. In this study, sequences of two single copy nuclear genes, RPB2 and DMC1, were used to confirm or refute the genome constitutions of the two Stenostachys species and the two Elymus species from New Zealand, and to analyse their phylogenetic relationships with other Elymus species. Our RPB2 and DMC1 data confirmed that the genome constitution of hexaploid E. apricus is StWY, and tetraploid S. gracilis is HW. The presence of the StW genome in hexaploid E. multiflorus, and the W genome in tetraploid S. laevis is also confirmed. No obvious St genome differentiation between New Zealand and non-New Zealand species is observed. The H genomes in the S. gracilis and S. laevis are closely related to the H genome from North American species, indicating that the H genomes in these two New Zealand species might originate from North American Hordeum species.

Evaluation of Stored Maize Losses in Cameroon

1994 ◽  
Vol 30 (1) ◽  
pp. 45-55 ◽  
Author(s):  
Dermot Mchugh
Keyword(s):  
Economic Value ◽  
Consumption Patterns ◽  
Reliable Estimate ◽  
Primary Concern ◽  
North West ◽  
Storage Losses ◽  
The North ◽  
End Use ◽  
The Cost ◽  
Farmer Surveys

SummaryFarmer surveys have consistently shown maize storage losses to be of primary concern to farmers in the western highlands of Cameroon. Past attempts at evaluating these losses, however, have proved to be unsatisfactory, mainly because of failure to consider qualitative, as well as quantitative, losses or to take account of consumption patterns (that is, timing and end use). A simulation model is presented that overcomes these deficiencies while providing a reliable estimate of the economic value of storage losses to the farmer, albeit at the cost of requiring fairly exacting data. The model is used to estimate the value of storage losses to farmers in the North West Province of Cameroon.

Phylogeny in the genus Hordeum based on nucleotide sequences closely linked to the vrs1 locus (row number of spikelets)

Genome ◽  
1999 ◽  
Vol 42 (5) ◽  
pp. 973-981 ◽  
Author(s):  
Takao Komatsuda ◽  
Ken-ichi Tanno ◽  
Björn Salomon ◽  
Tomas Bryngelsson ◽  
Roland von Bothmer
Keyword(s):  
Nuclear Dna ◽  
Sister Group ◽  
Single Copy ◽  
Nucleotide Sequences ◽  
Restriction Maps ◽  
Deletion Event ◽  
Single Base ◽  
Genome Group ◽  
The Difference ◽  
Hordeum Species

The phylogenetic relationship between four basic genomes designated H, I, Xa, and Xu in the genus Hordeum was studied using a nuclear DNA sequence. The sequence, cMWG699, is single copy in the H. vulgare genome, and tightly linked to the vrs1 locus which controls two- and six-rowed spikes. DNA fragments homologous to cMWG699 were amplified from diploid Hordeum species and the nucleotide sequences were determined. A phylogeny based on both base substitutions and an insertion-deletion event showed that the H- and Xa-genome groups are positioned in one monophyletic group indicating that the Xa-genome taxa should be included in the H-genome group. The large H-genome group is highly homogeneous. The I and Xu genomes are distinctly separated from H and Xa, and form sister groups. Another phylogeny pattern based on data excluding the insertion-deletion gave a result that the Xa genome forms a sister group to the H-genome group. The difference between the H and Xa genomes was affected only by a single base insertion-deletion event, thus the H and Xa genomes are likely to be closely related. The I and Xu genomes were again distinctly separated from the H and Xa genomes.Key words: genome DNA, molecular markers, restriction maps, barley, Psathyrostachys.

scholarly journals Identifying the North American Plum Species Phylogenetic Signal Using Nuclear, Mitochondrial, and Chloroplast DNA Markers

2016 ◽  
Vol 141 (6) ◽  
pp. 623-644 ◽  
Author(s):  
Dario J. Chavez ◽  
Thomas G. Beckman ◽  
José X. Chaparro
Keyword(s):  
Chloroplast Dna ◽  
Prunus Persica ◽  
Phylogenetic Signal ◽  
Phylogenetic Analyses ◽  
Nuclear Gene ◽  
Its Region ◽  
Single Copy ◽  
Species Level ◽  
Species Relationships ◽  
The North

Prunus phylogeny has been extensively studied using chloroplast DNA (cpDNA) sequences. Chloroplast DNA has a slow rate of evolution, which is beneficial to determine species relationships at a deeper level. The chloroplast-based phylogenies have a limitation due to the transfer of this organelle by interspecific hybridization. This creates difficulties when studying species relationships. Interspecific hybrids in Prunus occur naturally and have been reported, which creates a problem when using cpDNA-based phylogenies to determine species relationships. The main goal of this project was to identify nuclear gene regions that could provide an improved phylogenetic signal at the species level in Prunus. A total of 11 species in Prunus and within section Prunocerasus were used. Two peach (Prunus persica) haploids were used to test the reliability of the molecular markers developed in this project to amplify single-copy genes. A total of 33 major genes associated with vernalization response, 16 with tree architecture, and 3 with isozymes, were tested. Similarly, 41 simple sequence repeat (SSR) markers, seven cpDNA regions, and the internal transcribed spacer (ITS) region, were used. Multiple gene regions were identified and provided the greatest number of characters, greatest variability, and improved phylogenetic signal at the species level in Prunus section Prunocerasus. Out of those, trnH-psbA, PGI, MAX4, AXR1, LFY, PHYE, and VRN1 are recommended for a phylogenetic analysis with a larger number of taxa. The use of potentially informative characters (PICS) as a measure of how informative a region will be for phylogenetic analyses has been previously reported beneficial in cpDNA regions and it clearly was important in this research. This will allow selecting the region(s), which can be used in phylogenetic studies with higher number of taxa.

scholarly journals A Role for Topoisomerase I in Fusarium graminearum and F. culmorum Pathogenesis and Sporulation

2010 ◽  
Vol 23 (5) ◽  
pp. 566-577 ◽  
Author(s):  
Thomas K. Baldwin ◽  
Martin Urban ◽  
Neil Brown ◽  
Kim E. Hammond-Kosack
Keyword(s):  
Fusarium Graminearum ◽  
Topoisomerase I ◽  
Insertional Mutagenesis ◽  
Hyphal Growth ◽  
Single Copy ◽  
Forward Genetics ◽  
Host Responses ◽  
Trichothecene Mycotoxin ◽  
Gene Coding

Fusarium graminearum and F. culmorum are the causal agents of Fusarium ear blight (FEB) in wheat. A forward genetics approach was taken to discover novel pathogenicity genes in the genome of F. graminearum. A library of transformants created by random plasmid insertional mutagenesis was screened on wheat ears for virulence defects. Plasmid rescue on one of the reduced-virulence mutants revealed a single-copy plasmid insertion in the gene coding for the DNA interacting enzyme, topoisomerase I. Targeted topoisomerase I gene-deletion mutants were created in strains of both F. graminearum and F. culmorum. The top1 mutants of both species exhibited greatly reduced virulence in wheat ear infection assays (GO:0009405 and GO:0044145). Detailed microscopy analyses revealed that top1 hyphal growth was restricted to palea tissue whereas host responses were discernable 1,000 μm further away in the rachis node. Asexual sporulation was reduced in the F. graminearum mutants and was absent from the F. culmorum mutants. The F. graminearum mutant did not develop sexual spores when subjected to an in vitro perithecia production assay. During in vitro growth, the top1 mutants of both species were still able to produce the trichothecene mycotoxin, deoxynivalenol.

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