Joseph W. Carlson

Genome resources for three modern cotton lines guide future breeding efforts

Avinash Sreedasyam, John T. Lovell, Sujan Mamidi, Sameer Khanal et autres

Cotton (Gossypium hirsutum L.) is the key renewable fibre crop worldwide, yet its yield and fibre quality show high variability due to genotype-specific traits and complex interactions among cultivars, management practices and environmental factors. Modern breeding practices may limit future yield gains …

us, au (code pays fourni par la source)

The complex polyploid genome architecture of sugarcane

Adam L. Healey, Olivier Garsmeur, John T. Lovell, S. Shengquiang et autres

Abstract Sugarcane, the world’s most harvested crop by tonnage, has shaped global history, trade and geopolitics, and is currently responsible for 80% of sugar production worldwide 1 . While traditional sugarcane breeding methods have effectively generated cultivars adapted to new environments and …

us, fr, au, cz, re (code pays fourni par la source)

JGI Plant Gene Atlas: an updateable transcriptome resource to improve functional gene descriptions across the plant kingdom

Avinash Sreedasyam, Christopher B. Plott, Md Shakhawat Hossain, John T. Lovell et autres

Gene functional descriptions offer a crucial line of evidence for candidate genes underlying trait variation. Conversely, plant responses to environmental cues represent important resources to decipher gene function and subsequently provide molecular targets for plant improvement through gene editing. However, biological roles …

us, de, es, br (code pays fourni par la source)

Supplementary Tables S1-S3 from SOX5/6/21 Prevent Oncogene-Driven Transformation of Brain Stem Cells

Idha Kurtsdotter, Danijal Topcic, Alexandra Karlén, Bhumica Singla et autres

This file contains Tables S1-S3. Table S1 shows number of injected mice and tumor incidence. Table S2 shows genes and fold changes of commonly up and down regulated genes in mouse Sox5/6/21fl/fl tumors and human GBM. Table S3 shows Sox21 ChIPseq peaks …

Supplementary Tables S1-S3 from SOX5/6/21 Prevent Oncogene-Driven Transformation of Brain Stem Cells

Idha Kurtsdotter, Danijal Topcic, Alexandra Karlén, Bhumica Singla et autres

This file contains Tables S1-S3. Table S1 shows number of injected mice and tumor incidence. Table S2 shows genes and fold changes of commonly up and down regulated genes in mouse Sox5/6/21fl/fl tumors and human GBM. Table S3 shows Sox21 ChIPseq peaks …

A view of the pan‐genome of domesticated Cowpea ( Vigna unguiculata [L.] Walp.)

Qihua Liang, María Muñoz‐Amatriaín, Shengqiang Shu, Sassoum Lô et autres

Cowpea, Vigna unguiculata L. Walp., is a diploid warm-season legume of critical importance as both food and fodder in sub-Saharan Africa. This species is also grown in Northern Africa, Europe, Latin America, North America, and East to Southeast Asia. To capture the …

us, es, cn (code pays fourni par la source)

JGI Plant Gene Atlas: An updateable transcriptome resource to improve structural annotations and functional gene descriptions across the plant kingdom

Avinash Sreedasyam, Christopher B. Plott, Md Shakhawat Hossain, John T. Lovell et autres

ABSTRACT Gene functional descriptions, which are typically derived from sequence similarity to experimentally validated genes in a handful of model species, offer a crucial line of evidence when searching for candidate genes that underlie trait variation. Plant responses to environmental cues, including …

us, de, es, br (code pays fourni par la source)

A view of the pan-genome of domesticated cowpea ( Vigna unguiculata [L.] Walp.)

Qihua Liang, María Muñoz‐Amatriaín, Shengqiang Shu, Sassoum Lô et autres

Abstract Cowpea, Vigna unguiculata L . Walp., is a diploid warm-season legume of critical importance as both food and fodder in sub-Saharan Africa. This species is also grown in Northern Africa, Europe, Latin America, North America, and East to Southeast Asia. To …

us, cn (code pays fourni par la source)

GENESPACE tracks regions of interest and gene copy number variation across multiple genomes

John T. Lovell, Avinash Sreedasyam, M. Eric Schranz, Melissa A. Wilson et autres

The development of multiple chromosome-scale reference genome sequences in many taxonomic groups has yielded a high-resolution view of the patterns and processes of molecular evolution. Nonetheless, leveraging information across multiple genomes remains a significant challenge in nearly all eukaryotic systems. These challenges …

us, nl, gb (code pays fourni par la source)

Author response: GENESPACE tracks regions of interest and gene copy number variation across multiple genomes

John T. Lovell, Avinash Sreedasyam, M. Eric Schranz, Melissa A. Wilson et autres

The genome is the complete DNA sequence of an individual. It is a crucial foundation for many studies in medicine, agriculture, and conservation biology. Advances in genetics have made it possible to rapidly sequence, or read out, the genome of many organisms. …

us, nl, gb (code pays fourni par la source)

Chromosome evolution and the genetic basis of agronomically important traits in greater yam

Jessen V. Bredeson, Jessica B. Lyons, Ibukun O. Oniyinde, Nneka R. Okereke et autres

The nutrient-rich tubers of the greater yam, Dioscorea alata L., provide food and income security for millions of people around the world. Despite its global importance, however, greater yam remains an orphan crop. Here, we address this resource gap by presenting a …

us, Nigéria, cz, gb, Kenya, dk, Afrique du Sud, jp (code pays fourni par la source)

GENESPACE: syntenic pan-genome annotations for eukaryotes

John T. Lovell, Avinash Sreedasyam, M. Eric Schranz, Melissa A. Wilson et autres

The development of multiple high-quality reference genome sequences in many taxonomic groups has yielded a high-resolution view of the patterns and processes of molecular evolution. Nonetheless, leveraging information across multiple reference haplotypes remains a significant challenge in nearly all eukaryotic systems. These …

us, nl, gb (code pays fourni par la source)