(Q34983925)

5 August 2017

title

Insights into the loblolly pine genome: characterization of BAC and fosmid sequences (English)

1 reference

5 August 2017

12

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5 August 2017

Marc Crepeau

9

0 references

Jill Wegrzyn

object named as

Jill L Wegrzyn

1

0 references

David B Neale

13

object named as

David B Neale

1 reference

5 August 2017

Brian Y Lin

2

1 reference

5 August 2017

Jacob J Zieve

3

1 reference

5 August 2017

William M Dougherty

4

1 reference

5 August 2017

Pedro J Martínez-García

5

1 reference

5 August 2017

Maxim Koriabine

6

1 reference

5 August 2017

Ann Holtz-Morris

7

1 reference

5 August 2017

Pieter deJong

8

1 reference

5 August 2017

Charles H Langley

10

1 reference

5 August 2017

Daniela Puiu

11

1 reference

5 August 2017

Kristian A Stevens

14

1 reference

5 August 2017

language of work or name

English

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publication date

4 September 2013

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5 August 2017

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5 August 2017

volume

8

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5 August 2017

issue

9

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5 August 2017

page(s)

e72439

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Creative Commons Attribution 4.0 International

5 August 2017

copyright license

start time

4 September 2013

1 reference

April 2022 Public Data File from Crossref

copyright status

copyrighted

0 references

cites work

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Adventures in the enormous: a 1.8 million clone BAC library for the 21.7 Gb genome of loblolly pine

8 July 2018

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8 July 2018

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Genome-wide characterization of simple sequence repeats in cucumber (Cucumis sativus L.).

8 July 2018

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Variable tandem repeats accelerate evolution of coding and regulatory sequences.

8 July 2018

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8 July 2018

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The Pinus taeda genome is characterized by diverse and highly diverged repetitive sequences

8 July 2018

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An examination of targeted gene neighborhoods in strawberry.

8 July 2018

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Fast and accurate long-read alignment with Burrows-Wheeler transform

8 July 2018

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8 July 2018

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The B73 Maize Genome: Complexity, Diversity, and Dynamics

8 July 2018

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Increasing phylogenetic resolution at low taxonomic levels using massively parallel sequencing of chloroplast genomes

8 July 2018

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8 July 2018

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Targeted isolation, sequence assembly and characterization of two white spruce (Picea glauca) BAC clones for terpenoid synthase and cytochrome P450 genes involved in conifer defence reveal insights into a conifer genome

8 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Gene duplication and evolutionary novelty in plants

8 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

A Nest of LTR Retrotransposons Adjacent the Disease Resistance-Priming Gene NPR1 in Beta vulgaris L. U.S. Hybrid H20.

8 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Evolution of genome size and complexity in Pinus

8 July 2018

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8 July 2018

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Comparative genomics and molecular dynamics of DNA repeats in eukaryotes

8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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8 July 2018

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The grapevine genome sequence suggests ancestral hexaploidization in major angiosperm phyla

8 July 2018

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Repetitive sequences in complex genomes: structure and evolution

8 July 2018

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Transposable elements and the epigenetic regulation of the genome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

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8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Analysis of retrotransposon structural diversity uncovers properties and propensities in angiosperm genome evolution

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Annotation, submission and screening of repetitive elements in Repbase: RepbaseSubmitter and Censor

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

The Genome of Black Cottonwood, Populus trichocarpa (Torr. & Gray)

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Doubling genome size without polyploidization: dynamics of retrotransposition-driven genomic expansions in Oryza australiensis, a wild relative of rice

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

AUGUSTUS: ab initio prediction of alternative transcripts

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Transposable elements, gene creation and genome rearrangement in flowering plants

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

PILER: identification and classification of genomic repeats

8 July 2018

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https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

MUSCLE: a multiple sequence alignment method with reduced time and space complexity

8 July 2018

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Microsatellites: genomic distribution, putative functions and mutational mechanisms: a review

8 July 2018

1 reference

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Efficient capture of unique sequences from eukaryotic genomes

8 July 2018

1 reference

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Automated de novo identification of repeat sequence families in sequenced genomes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Families of clustered microsatellites in a conifer genome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

A new gypsy-type retrotransposon, RIRE7: preferential insertion into the tandem repeat sequence TrsD in pericentromeric heterochromatin regions of rice chromosomes

8 July 2018

1 reference

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Initial sequencing and analysis of the human genome

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Analysis of the genome sequence of the flowering plant Arabidopsis thaliana

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Phylogeny of seed plants based on all three genomic compartments: extant gymnosperms are monophyletic and Gnetales' closest relatives are conifers

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

8 July 2018

Plant retrotransposons

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

IFG, a gypsy-like retrotransposon in Pinus (Pinaceae), has an extensive history in pines

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Non-LTR retrotransposons (LINEs) as ubiquitous components of plant genomes

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Tandem repeats finder: a program to analyze DNA sequences

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Repeat instability at human minisatellites arising from meiotic recombination

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

The genomic and physical organization of Ty1-copia-like sequences as a component of large genomes in Pinus elliottii var. elliottii and other gymnosperms

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Isolation of a higher eukaryotic telomere from Arabidopsis thaliana

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Stable propagation of cosmid sized human DNA inserts in an F factor based vector

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Cloning and stable maintenance of 300-kilobase-pair fragments of human DNA in Escherichia coli using an F-factor-based vector

8 July 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

Production of ethanol from carbohydrates from loblolly pine: a technical and economic assessment

8 July 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0072439

A detailed look at 7 million years of genome evolution in a 439 kb contiguous sequence at the barley Hv-eIF4E locus: recombination, rearrangements and repeats.

21 January 2018

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https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0072439

Different classes of retrotransposons in coniferous spruce species.

21 January 2018

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https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0072439

Detection of new transposable element families in Drosophila melanogaster and Anopheles gambiae genomes

21 January 2018

1 reference

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Transcriptome profiling of wood maturation in Pinus radiata identifies differentially expressed genes with implications in juvenile and mature wood variation.

21 January 2018

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https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0072439

Fine-grained annotation and classification of de novo predicted LTR retrotransposons.

21 January 2018

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https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0072439

Target site specificity of the Tos17 retrotransposon shows a preference for insertion within genes and against insertion in retrotransposon-rich regions of the genome.

21 January 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0072439

Diversity, origin, and distribution of retrotransposons (gypsy and copia) in conifers

21 January 2018

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https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0072439

New insights into nested long terminal repeat retrotransposons in Brassica species.

21 January 2018

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https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0072439

PpRT1: the first complete gypsy-like retrotransposon isolated in Pinus pinaster

21 January 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

On global sequence alignment.

26 October 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=3762812

The contribution of short repeats of low sequence complexity to large conifer genomes

26 October 2018

1 reference

https://api.crossref.org/works/10.1371%2FJOURNAL.PONE.0072439

Occurrence and inheritance of microsatellites in Pinus radiata

21 January 2018

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24023741

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Insertion preference of maize and rice miniature inverted repeat transposable elements as revealed by the analysis of nested elements

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/24023741

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1371/JOURNAL.PONE.0072439

1 reference

5 August 2017

0 references

1 reference

5 August 2017

1 reference