scholarly journals Elucidation of the Genome of Bradyrhizobium sp. Strain USDA 3456, a Historic Agricultural Diazotroph from Cowpea (Vigna unguiculata)

2019 ◽  
Vol 8 (33) ◽  
Author(s):  
Richard Allen White ◽  
Jeffrey S. Norman ◽  
Emily E. Mclachlan ◽  
Joseph P. Dunham ◽  
Aaron Garoutte ◽  
...  
Keyword(s):  
Vigna Unguiculata ◽  
Agricultural Research ◽  
Draft Genome ◽  
Germplasm Collection ◽  
The United States ◽  
United States Department ◽  
Content Type ◽  
Agricultural Applications ◽  
Bradyrhizobium Sp ◽  
Strain Usda

Bradyrhizobium sp. strain USDA 3456 is a historic strain from the United States Department of Agriculture (USDA) Agricultural Research Service (ARS) National Rhizobium Germplasm Collection isolated from Vigna unguiculata (cowpea) in 1966. Strain USDA 3456 has been utilized in global agricultural applications, including improving soil nitrogen fertility. The draft genome sequence here provides a genetic reference of a novel diazotroph.

scholarly journals Revealing the Draft Genome Sequence of Bradyrhizobium sp. Strain USDA 3458, an Effective Symbiotic Diazotroph Isolated from Cowpea (Vigna unguiculata) Genotype IT82E-16

2019 ◽  
Vol 8 (38) ◽  
Author(s):  
Richard Allen White ◽  
Jeffrey S. Norman ◽  
Emily E. Mclachlan ◽  
Joseph P. Dunham ◽  
Aaron Garoutte ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Vigna Unguiculata ◽  
Draft Genome ◽  
Draft Genome Sequence ◽  
Plant Growth Promoting Bacteria ◽  
Content Type ◽  
Bradyrhizobium Sp ◽  
Plant Growth Promoting ◽  
Growth Promoting ◽  
Strain Usda

Pairing plants with plant growth-promoting bacteria is critical to the future of agriculture. Bradyrhizobium sp. strain USDA 3458 isolated from Vigna unguiculata (cowpea) paired with cowpea genotype IT82E-16 represents a novel combination in arid regions. Here, we report the draft genome sequence of strain USDA 3458.

scholarly journals Detection and Classification of SPLCV Isolates in the U.S. Sweetpotato Germplasm Collection via a Real-Time PCR Assay and Phylogenetic Analysis

Plant Disease ◽  
2011 ◽  
Vol 95 (11) ◽  
pp. 1385-1391 ◽  
Author(s):  
N. A. Barkley ◽  
D. L. Pinnow ◽  
M. L. Wang ◽  
K. S. Ling ◽  
R. L. Jarret
Keyword(s):  
Phylogenetic Analysis ◽  
Real Time ◽  
Ipomoea Batatas ◽  
Agricultural Research ◽  
Germplasm Collection ◽  
The United States ◽  
United States Department ◽  
Potato Leaf ◽  
In Vitro Plantlets

The United States Department of Agriculture–Agricultural Research Service sweetpotato (Ipomoea batatas) germplasm collection contains accessions that were initially collected from various countries worldwide. These materials have been maintained and distributed as in vitro plantlets since the mid-1980s. The status of viral infection by the emerging Sweet potato leaf curl virus (SPLCV) and other Begomovirus spp. in this germplasm has yet to be determined. In order to minimize the potential distribution of virus-infected clones, all accessions in the collection were tested for SPLCV using a real-time polymerase chain reaction assay. In total, 47 of 701 accessions of in vitro plantlets tested positive for SPLCV. The presence of SPLCV detected in these materials was confirmed via biological indexing using the indicator plants I. nil and I. muricata. Symptoms appeared more rapidly on I. muricata than on I. nil. Nucleotide polymorphisms among the isolates were evaluated by sequencing the AV1 coat protein gene from 24 SPLCV-infected accessions. The results revealed that the SPLCV isolates shared high sequence identity. Ten nucleotide substitutions were identified, most of which were synonymous changes. Phylogenetic analysis was conducted on those 24 SPLCV isolates in combination with six described SPLCV species and various SPLCV strains from GenBank to evaluate the relationships among viral species or strains. The results from this analysis indicated that most of the AV1 genes derived from previously classified SPLCV species clustered together, some of which formed well-supported monophyletic clades, further supporting the current taxonomy. Overall, identification of SPLCV-infected germplasm will allow approaches to be employed to eliminate the virus from the collection and limit the distribution of infected materials.

scholarly journals A Highly Sensitive Method to Detect Avocado Sunblotch Viroid for the Maintenance of Infection-Free Avocado Germplasm Collections

Viruses ◽  
2019 ◽  
Vol 11 (6) ◽  
pp. 512
Author(s):  
David N. Kuhn ◽  
Barbie Freeman ◽  
Andrew Geering ◽  
Alan H. Chambers
Keyword(s):  
Agricultural Research ◽  
Germplasm Collection ◽  
The United States ◽  
Persea Americana ◽  
Molecular Diagnostic ◽  
Taqman Assay ◽  
Research Station ◽  
United States Department ◽  
The Creation ◽  
Avocado Sunblotch Viroid

The United States Department of Agriculture (USDA) Agricultural Research Service (ARS) Subtropical Horticulture Research Station (SHRS) in Miami, FL holds a large germplasm collection of avocado (Persea americana). The recent threat of infection by laurel wilt has encouraged the creation of a backup collection at a disease-free site. Creating the backup collection is complicated by infection of some trees in the germplasm collection with avocado sunblotch viroid (ASBVd). Infected trees are frequently asymptomatic, necessitating the use of a molecular diagnostic assay. Although a reverse-transcription based assay already exists and has been used to assay all germplasm at the station, some trees showed inconsistent results. We have developed a more sensitive and specific assay involving pre-amplification of the entire viroid cDNA followed by detection using real-time PCR and a TaqMan assay. A second screening of all germplasm identified additional ASBVd -infected trees and allowed us to confidently remove these trees from the station. This method enables avocado germplasm curators to proceed with the creation of a viroid-free backup collection.

scholarly journals Conservation and Utilization of Livestock Genetic Diversity in the United States of America through Gene Banking

Diversity ◽  
2019 ◽  
Vol 11 (12) ◽  
pp. 244 ◽  
Author(s):  
Harvey D. Blackburn ◽  
Carrie S. Wilson ◽  
Bethany Krehbiel
Keyword(s):  
United States ◽  
Genetic Diversity ◽  
Agricultural Research ◽  
Germplasm Collection ◽  
The United States ◽  
United States Department ◽  
Livestock Sector ◽  
Wide Range ◽  
The Status ◽  
Span 60

A germplasm collection curated by the United States Department of Agriculture (USDA), Agricultural Research Service (ARS), National Animal Germplasm Program contains of over one million samples from over 55,000 animals, representing 165 livestock and poultry breeds. The collection was developed to provide genetic conservation and security for the U.S. livestock sector. Samples in the collection span 60 years, suggesting a wide range of genetic diversity and genetic change is represented for rare and major breeds. Classifying breeds into four groups based upon registration or census estimates of population size of < 1000, < 5000, < 20,000, and > 20,000 indicated that 50% of the collection is comprised of rare breeds in the < 1000 category. As anticipated, collections for breeds in the < 20,000 and > 20,000 are more complete (86% and 98%, respectively) based upon an index combining the number of germplasm samples and the number of animals. For the rarest breeds (< 1000), collection completeness was 45%. Samples from over 6000 animals in the collection have been used for adding diversity to breeds, genomic evaluation, reconstituting populations, or various research projects. Several aspects of collecting germplasm samples from rare breeds are discussed. In addition, approaches that could be used to enhance the status of rare breeds via the repository use are presented. However, given the array of obstacles confronting rare breeds, the gene bank may be the most secure prospect for the long-term conservation of rare breed genetics.

The Third Agricultural Aviation Research Conference

1959 ◽  
Vol 63 (579) ◽  
pp. 183-183
Author(s):  
P. H. Southwell
Keyword(s):  
United States ◽  
Agricultural Research ◽  
The United States ◽  
United States Department ◽  
Department Of Agriculture ◽  
States Department ◽  
The Third ◽  
Agricultural Applications ◽  
Agricultural Research Service ◽  
Research Service

The first of these conferences was held in 1953, the second in 1954 and the third in November 1958 at Milwaukee. This third conference was sponsored by the Agricultural Research Service of the United States Department of Agriculture and, to promote worthwhile discussions, attendance was by invitation only.Twenty papers were presented on four main themes, economics, progress as regards agricultural applications, progress as regards forest applications and, finally, a review of present and proposed research.

Armillaria novae-zelandiae.

2021 ◽  
Author(s):  
Ian Hood
Keyword(s):  
Agricultural Research ◽  
Disease Risk ◽  
Nutrient Recycling ◽  
The United States ◽  
Laboratory Culture ◽  
Root Disease ◽  
White Rot ◽  
United States Department ◽  
Planted Forests ◽  
Global Database

Abstract Armillaria novae-zelandiae is a white rot wood decay fungus and root disease pathogen that occurs in a number of countries in the Southern Hemisphere and in parts of tropical and subtropical Asia. It is not known to have been introduced to these regions, where it is presumed to be indigenous. Its designation as "invasive" is based on its propensity to establish colonies and disease centres in disease-free areas by dispersal of basidiospores from "toadstool" fruit bodies that appear on wood during the winter months. As a wood decomposer fungus A. novae-zelandiae contributes beneficially to carbon and nutrient recycling. Like many other Armillaria species it is recognized by characteristic white mycelial fans or ribbons produced beneath host bark and by its bootlace-like rhizomorphs by which it spreads vegetatively from colonized buried woody material or stump root systems to infect living host plants.Armillaria novae-zelandiae was the cause of substantial disease losses in plantations of Pinus radiata and orchards of kiwifruit vines (Actinidia deliciosa) in New Zealand from the 1970s to the 1990s. Its importance has since declined with changes in patterns of crop management, although it remains widely distributed. Much research into its control was undertaken during this period. In eastern states in Australia, A. novae-zelandiae is a minor cause of root disease in natural and planted forests, where it is of lesser importance than Armillaria luteobubalina. Its impact in other regions is unknown, but it has not been associated with reports of significant disease. Risk of unintended international spread appears to be low to negligible but should not be discounted. If intercepted, isolates of A. novae-zelandiae may be identified by laboratory culture testing or more rapidly and precisely by molecular sequencing procedures. A. novae-zelandiae is listed in the EPPO Global Database and features in the United States Department of Agriculture Agricultural Research Service fungal databases. It is considered a risk organism in Hawai'i.

scholarly journals Draft Genome Sequences of Eight Vibrio sp. Clinical Isolates from across the United States That Form a Basal Sister Clade to Vibrio cholerae

2019 ◽  
Vol 8 (3) ◽  
Author(s):  
Kevin Liang ◽  
Mohammad Tarequl Islam ◽  
Nora Hussain ◽  
Nathan S. Winkjer ◽  
Monica S. Im ◽  
...  
Keyword(s):  
United States ◽  
Vibrio Cholerae ◽  
Draft Genome ◽  
The United States ◽  
Clinical Isolates ◽  
Genome Sequences ◽  
Content Type ◽  
Monophyletic Cluster ◽  
Sister Clade

We sequenced the genomes of eight isolates from various regions of the United States. These isolates form a monophyletic cluster clearly related to but distinct from Vibrio cholerae.

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