List of works - John P Hamilton

A root-expressed L-phenylalanine:4-hydroxyphenylpyruvate aminotransferase is required for tropane alkaloid biosynthesis in Atropa belladonna

scientific article published on 16 September 2014

A stereoselective hydroxylation step of alkaloid biosynthesis by a unique cytochrome P450 in Catharanthus roseus ⬇️

scientific article

Advances in plant genome sequencing

scientific article published on April 2012

Alternative splicing of a multi-drug transporter from Pseudoperonospora cubensis generates an RXLR effector protein that elicits a rapid cell death

scientific article

Analysis of Ribosome-Associated mRNAs in Rice Reveals the Importance of Transcript Size and GC Content in Translation

scientific article

Analysis of the Pythium ultimum transcriptome using Sanger and Pyrosequencing approaches

scientific article

Carbohydrate-active enzymes in pythium and their role in plant cell wall and storage polysaccharide degradation

scientific article

Characterization of the Xanthomonas translucens Complex Using Draft Genomes, Comparative Genomics, Phylogenetic Analysis, and Diagnostic LAMP Assays

scientific article published on 23 January 2017

Comparative analysis of two emerging rice seed bacterial pathogens

scientific article

Comparative genomics reveals insight into virulence strategies of plant pathogenic oomycetes

scientific article published on 04 October 2013

Comprehensive analysis of alternative splicing in rice and comparative analyses with Arabidopsis

scientific article

Construction of reference chromosome-scale pseudomolecules for potato: integrating the potato genome with genetic and physical maps

scientific article

De novo genome assembly of Camptotheca acuminata, a natural source of the anti-cancer compound camptothecin

scientific article

Development of a large SNP genotyping array and generation of high-density genetic maps in tomato

scientific article

Development of transcriptomic resources for interrogating the biosynthesis of monoterpene indole alkaloids in medicinal plant species

scientific article

EuCAP, a Eukaryotic Community Annotation Package, and its application to the rice genome

scientific article

Expressed sequence tags from loblolly pine embryos reveal similarities with angiosperm embryogenesis

scientific article published on 26 September 2006

Expression profiling of Cucumis sativus in response to infection by Pseudoperonospora cubensis

scientific article

Gene Discovery in Gelsemium Highlights Conserved Gene Clusters in Monoterpene Indole Alkaloid Biosynthesis

article

Gene amplification of 5-enol-pyruvylshikimate-3-phosphate synthase in glyphosate-resistant Kochia scoparia

scientific article published on 5 November 2014

Genome Assembly and Annotation of the Medicinal Plant Calotropis gigantea, a Producer of Anti-Cancer and Anti-Malarial Cardenolides

scientific article published on 12 December 2017

Genome Reduction Uncovers a Large Dispensable Genome and Adaptive Role for Copy Number Variation in Asexually Propagated Solanum tuberosum

scientific article

Genome diversity of tuber-bearing Solanum uncovers complex evolutionary history and targets of domestication in the cultivated potato

scientific article published on 30 October 2017

Genome sequence of M6, a diploid inbred clone of the high glycoalkaloid-producing tuber-bearing potato species Solanum chacoense, reveals residual heterozygosity.

scientific article published on 5 February 2018

Genome sequence of the necrotrophic plant pathogen Pythium ultimum reveals original pathogenicity mechanisms and effector repertoire

scientific article

Genome sequences of two diploid wild relatives of cultivated sweetpotato reveal targets for genetic improvement

scientific article published in Nature Communications

Genome-guided investigation of plant natural product biosynthesis

scientific article published on 11 April 2015

Genomic analysis of Xanthomonas oryzae isolates from rice grown in the United States reveals substantial divergence from known X. oryzae pathovars.

scientific article published on 22 April 2011

Genomics-Based Diagnostic Marker Development forXanthomonas oryzaepv.oryzaeandX. oryzaepv.oryzicola

article

Haplotype-Phased Synthetic Long Reads from Short-Read Sequencing

scientific article published on 20 January 2016

Haplotype-resolved genome analyses of a heterozygous diploid potato

scientific article published on 28 September 2020

Identification and characterization of lineage-specific genes within the Poaceae

scientific article (publication date: December 2007)

Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data

scientific article

Integration of two diploid potato linkage maps with the potato genome sequence

scientific article published on 27 April 2012

Novel Loci Underlie Natural Variation in Vitamin E Levels in Maize Grain.

scientific article

Reply to Huang et al.: Avoiding "one-size-fits-all" approaches to variant discovery

article published in the Proceedings of the National Academy of Sciences of the United States of America

Single Nucleotide Polymorphism Discovery in Cultivated Tomato via Sequencing by Synthesis

article

Single nucleotide polymorphism discovery in elite North American potato germplasm

scientific article

Spud DB: A Resource for Mining Sequences, Genotypes, and Phenotypes to Accelerate Potato Breeding

article

The Comprehensive Phytopathogen Genomics Resource: a web-based resource for data-mining plant pathogen genomes

scientific article

The TIGR Plant Transcript Assemblies database

scientific article

The TIGR Rice Genome Annotation Resource: improvements and new features

scientific article published on December 2006

The evolutionary origins of the cat attractant nepetalactone in catnip

scientific article published on 13 May 2020

The institute for genomic research Osa1 rice genome annotation database

scientific article published on May 2005

The tepary bean genome provides insight into evolution and domestication under heat stress

scientific article published on 11 May 2021

The unique epigenetic features of Pack-MULEs and their impact on chromosomal base composition and expression spectrum

scientific article published on 22 January 2018

Timber! Felling the loblolly pine genome

scientific article

mRNA-Seq analysis of the Pseudoperonospora cubensis transcriptome during cucumber (Cucumis sativus L.) infection

scientific article

List of works by John P Hamilton

A root-expressed L-phenylalanine:4-hydroxyphenylpyruvate aminotransferase is required for tropane alkaloid biosynthesis in Atropa belladonna

A stereoselective hydroxylation step of alkaloid biosynthesis by a unique cytochrome P450 in Catharanthus roseus ⬇️

Advances in plant genome sequencing

Alternative splicing of a multi-drug transporter from Pseudoperonospora cubensis generates an RXLR effector protein that elicits a rapid cell death

Analysis of Ribosome-Associated mRNAs in Rice Reveals the Importance of Transcript Size and GC Content in Translation

Analysis of the Pythium ultimum transcriptome using Sanger and Pyrosequencing approaches

Carbohydrate-active enzymes in pythium and their role in plant cell wall and storage polysaccharide degradation

Characterization of the Xanthomonas translucens Complex Using Draft Genomes, Comparative Genomics, Phylogenetic Analysis, and Diagnostic LAMP Assays

Comparative analysis of two emerging rice seed bacterial pathogens

Comparative genomics reveals insight into virulence strategies of plant pathogenic oomycetes

Comprehensive analysis of alternative splicing in rice and comparative analyses with Arabidopsis

Construction of reference chromosome-scale pseudomolecules for potato: integrating the potato genome with genetic and physical maps

De novo genome assembly of Camptotheca acuminata, a natural source of the anti-cancer compound camptothecin

Development of a large SNP genotyping array and generation of high-density genetic maps in tomato

Development of transcriptomic resources for interrogating the biosynthesis of monoterpene indole alkaloids in medicinal plant species

EuCAP, a Eukaryotic Community Annotation Package, and its application to the rice genome

Expressed sequence tags from loblolly pine embryos reveal similarities with angiosperm embryogenesis

Expression profiling of Cucumis sativus in response to infection by Pseudoperonospora cubensis

Gene Discovery in Gelsemium Highlights Conserved Gene Clusters in Monoterpene Indole Alkaloid Biosynthesis

Gene amplification of 5-enol-pyruvylshikimate-3-phosphate synthase in glyphosate-resistant Kochia scoparia

Genome Assembly and Annotation of the Medicinal Plant Calotropis gigantea, a Producer of Anti-Cancer and Anti-Malarial Cardenolides

Genome Reduction Uncovers a Large Dispensable Genome and Adaptive Role for Copy Number Variation in Asexually Propagated Solanum tuberosum

Genome diversity of tuber-bearing Solanum uncovers complex evolutionary history and targets of domestication in the cultivated potato

Genome sequence of M6, a diploid inbred clone of the high glycoalkaloid-producing tuber-bearing potato species Solanum chacoense, reveals residual heterozygosity.

Genome sequence of the necrotrophic plant pathogen Pythium ultimum reveals original pathogenicity mechanisms and effector repertoire

Genome sequences of two diploid wild relatives of cultivated sweetpotato reveal targets for genetic improvement

Genome-guided investigation of plant natural product biosynthesis

Genomic analysis of Xanthomonas oryzae isolates from rice grown in the United States reveals substantial divergence from known X. oryzae pathovars.

Genomics-Based Diagnostic Marker Development forXanthomonas oryzaepv.oryzaeandX. oryzaepv.oryzicola

Haplotype-Phased Synthetic Long Reads from Short-Read Sequencing

Haplotype-resolved genome analyses of a heterozygous diploid potato

Identification and characterization of lineage-specific genes within the Poaceae

Improvement of the Oryza sativa Nipponbare reference genome using next generation sequence and optical map data

Integration of two diploid potato linkage maps with the potato genome sequence

Novel Loci Underlie Natural Variation in Vitamin E Levels in Maize Grain.

Reply to Huang et al.: Avoiding "one-size-fits-all" approaches to variant discovery

Single Nucleotide Polymorphism Discovery in Cultivated Tomato via Sequencing by Synthesis

Single nucleotide polymorphism discovery in elite North American potato germplasm

Spud DB: A Resource for Mining Sequences, Genotypes, and Phenotypes to Accelerate Potato Breeding

The Comprehensive Phytopathogen Genomics Resource: a web-based resource for data-mining plant pathogen genomes

The TIGR Plant Transcript Assemblies database

The TIGR Rice Genome Annotation Resource: improvements and new features

The evolutionary origins of the cat attractant nepetalactone in catnip

The institute for genomic research Osa1 rice genome annotation database

The tepary bean genome provides insight into evolution and domestication under heat stress

The unique epigenetic features of Pack-MULEs and their impact on chromosomal base composition and expression spectrum

Timber! Felling the loblolly pine genome

mRNA-Seq analysis of the Pseudoperonospora cubensis transcriptome during cucumber (Cucumis sativus L.) infection