Genomics & Genetics | National Agricultural Library

Data from: Ploidy determination of buffel grass accessions in the USDA National Plant Germplasm System collection by flow cytometry

The DNA content of 568 accessions of buffel grass in the USDA National Plant Germplasm System was determined through flow cytometry to predict their ploidy levels. Based on DNA content, 308 accessions were determined as tetraploids with 36 chromosomes, 139 as pentaploids with 45 chromosomes, 20 as hexaploids with 54 chromosomes, two as septaploids with 63 chromosomes, and 99 as aneuploids. Chromosome counts of selected plants confirmed ploidy levels from DNA findings. Chromosome number of euploid plants could be predicted from the DNA data.

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Data from: A Whole Genome Assembly of the Horn Fly, Haematobia irritans, and Prediction of Genes with Roles in Metabolism and Sex Determination

To provide a foundation for identification of genomic loci for insecticide resistance and for discovery of new control technology, we report the sequencing, assembly, and annotation of the horn fly genome.

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Data from: A High-Quality Genome Assembly from a Single, Field-collected Spotted Lanternfly (Lycorma delicatula) using the PacBio Sequel II System

A 2.3 Gb de novo genome assembly of a field-collected adult female Spotted Lanternfly (Lycorma delicatula) using a single PacBio SMRT Cell is provided. Supporting files for the manuscript "A High-Quality Genome Assembly from a Single, Field-collected Spotted Lanternfly (Lycorma delicatula) using the PacBio Sequel II System", include several intermediate versions of the assembly (raw output from Falcon, raw output from Falcon unzip, etc.) as well as the final assembly primary contigs and haplotigs (for the regions of the genome that were phased).

SLF-spotted lanternfly (Lycorma delicatula); adult winged. Photo: Stephen Ausmus, ARS Image Gallery

2DLEAF

A 2D mechanistic model of CO2 and water vapor movement in a leaf and photosynthesis.

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MTDFREML: Multiple-trait derivative-free restricted maximum likelihood

A set of programs for estimation of genetic (co)variances using multiple-trait derivative-free restricted maximum likelihood.

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GENOSIM

The genosim package simulates genotypes, breeding values, and phenotypes; simulates DNA sequence read depth (numbers of A and B alleles); and resolves SNP conflicts between parent and offspring genotypes.

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FINDMAP

The findmap.f90 program aligns sequence reads to reference map, calls previous variants, and identifies new variants.

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FINDHAP

The findhap.f90 program finds haplotypes and imputes genotypes using multiple chip sets and sequence data.

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UPIC

Unique Pattern Informative Combinations (UPIC), a decision tool for the cost-effective design of DNA fingerprinting/genotyping experiments using simple-sequence/tandem repeat (SSR/STR) markers.

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Mixed Linear Model Approaches for Quantitative Gen

Computer software for estimating variance and covariance components, correlations, and predicting genetic effects.

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