Works by Neale, David B.

Results: 90

Assessment of Genetic Resources for Managing, Conserving, and Restoring North American Conifers: A Call to Action.

Published in:

Journal of Forestry, 2025, v. 123, n. 4, p. 413, doi. 10.1007/s44392-025-00028-x

By:

Neale, David B.;
Aitken, Sally N.;
St. Clair, J. Bradley;
Nelson, C. Dana;
Vargas Hernández, J. Jesús;
McGuire, Patrick E.

Publication type:

Article

High-quality chromosome-scale assembly of the walnut (Juglans regia L.) reference genome.

Published in:

GigaScience, 2020, v. 9, n. 5, p. N.PAG, doi. 10.1093/gigascience/giaa050

By:

Marrano, Annarita;
Britton, Monica;
Zaini, Paulo A;
Zimin, Aleksey V;
Workman, Rachael E;
Puiu, Daniela;
Bianco, Luca;
Pierro, Erica Adele Di;
Allen, Brian J;
Chakraborty, Sandeep;
Troggio, Michela;
Leslie, Charles A;
Timp, Winston;
Dandekar, Abhaya;
Salzberg, Steven L;
Neale, David B

Publication type:

Article

Pseudo-chromosome–length genome assembly of a double haploid "Bartlett" pear (Pyrus communis L.).

Published in:

GigaScience, 2019, v. 8, n. 12, p. N.PAG, doi. 10.1093/gigascience/giz138

By:

Linsmith, Gareth;
Rombauts, Stephane;
Montanari, Sara;
Deng, Cecilia H;
Celton, Jean-Marc;
Guérif, Philippe;
Liu, Chang;
Lohaus, Rolf;
Zurn, Jason D;
Cestaro, Alessandro;
Bassil, Nahla V;
Bakker, Linda V;
Schijlen, Elio;
Gardiner, Susan E;
Lespinasse, Yves;
Durel, Charles-Eric;
Velasco, Riccardo;
Neale, David B;
Chagné, David;
Van de Peer, Yves

Publication type:

Article

An improved assembly of the loblolly pine mega-genome using long-read single-molecule sequencing.

Published in:

GigaScience, 2017, v. 6, n. 1, p. 1, doi. 10.1093/gigascience/giw016

By:

Zimin, Aleksey V.;
Stevens, Kristian A.;
Crepeau, Marc W.;
Puiu, Daniela;
Wegrzyn, Jill L.;
Yorke, James A.;
Langley, Charles H.;
Neale, David B.;
Salzberg, Steven L.

Publication type:

Article

Genome‐wide association identifies candidate genes for drought tolerance in coast redwood and giant sequoia.

Published in:

Plant Journal, 2022, v. 109, n. 1, p. 7, doi. 10.1111/tpj.15592

By:

De La Torre, Amanda R.;
Sekhwal, Manoj K.;
Puiu, Daniela;
Salzberg, Steven L.;
Scott, Alison D.;
Allen, Brian;
Neale, David B.;
Chin, Alana R. O.;
Buckley, Thomas N.

Publication type:

Article

Genomic basis of white pine blister rust quantitative disease resistance and its relationship with qualitative resistance.

Published in:

Plant Journal, 2020, v. 104, n. 2, p. 365, doi. 10.1111/tpj.14928

By:

Weiss, Matthew;
Sniezko, Richard A.;
Puiu, Daniela;
Crepeau, Marc W.;
Stevens, Kristian;
Salzberg, Steven L.;
Langley, Charles H.;
Neale, David B.;
De La Torre, Amanda R.

Publication type:

Article

Comparative genomics of six Juglans species reveals disease‐associated gene family contractions.

Published in:

Plant Journal, 2020, v. 102, n. 2, p. 410, doi. 10.1111/tpj.14630

By:

Trouern‐Trend, Alexander J.;
Falk, Taylor;
Zaman, Sumaira;
Caballero, Madison;
Neale, David B.;
Langley, Charles H.;
Dandekar, Abhaya M.;
Stevens, Kristian A.;
Wegrzyn, Jill L.

Publication type:

Article

SPATIALLY VARIABLE NATURAL SELECTION AND THE DIVERGENCE BETWEEN PARAPATRIC SUBSPECIES OF LODGEPOLE PINE (PINUS CONTORTA, PINACEAE).

Published in:

American Journal of Botany, 2012, v. 99, n. 8, p. 1323, doi. 10.3732/ajb.1200055

By:

Eckert, Andrew J.;
Shahi, Hurshbir;
Datwyler, Shannon L.;
Neale, David B.

Publication type:

Article

Association of loblolly pine xylem development gene expression with single-nucleotide polymorphisms.

Published in:

Tree Physiology, 2013, v. 33, n. 7, p. 763, doi. 10.1093/treephys/tpt054

By:

Palle, Sreenath R.;
Seeve, Candace M.;
Eckert, Andrew J.;
Wegrzyn, Jill L.;
Neale, David B.;
Loopstra, Carol A.

Publication type:

Article

Light- and phytochrome-mediated gene expression in Douglas-fir seedlings.

Published in:

Physiologia Plantarum, 1992, v. 86, n. 1, p. 71, doi. 10.1111/j.1399-3054.1992.tb01313.x

By:

Alosi, M. Carol;
Neale, David B.

Publication type:

Article

Probing the dark matter of environmental associations yields novel insights into the architecture of adaptation.

Published in:

New Phytologist, 2023, v. 237, n. 5, p. 1479, doi. 10.1111/nph.18639

By:

Eckert, Andrew J.;
Neale, David B.

Publication type:

Article

Genomic architecture of complex traits in loblolly pine.

Published in:

New Phytologist, 2019, v. 221, n. 4, p. 1789, doi. 10.1111/nph.15535

By:

De La Torre, Amanda R.;
Puiu, Daniela;
Crepeau, Marc W.;
Stevens, Kristian;
Salzberg, Steven L.;
Langley, Charles H.;
Neale, David B.

Publication type:

Article

Quantitative phenotyping of shell suture strength in walnut (Juglans regia L.) enhances precision for detection of QTL and genome-wide association mapping.

Published in:

PLoS ONE, 2020, v. 15, n. 4, p. 1, doi. 10.1371/journal.pone.0231144

By:

Sideli, Gina M.;
Marrano, Annarita;
Montanari, Sara;
Leslie, Charles A.;
Allen, Brian J.;
Cheng, Hao;
Brown, Patrick J.;
Neale, David B.

Publication type:

Article

Association and linkage mapping to unravel genetic architecture of phenological traits and lateral bearing in Persian walnut (Juglans regia L.).

Published in:

BMC Genomics, 2020, v. 21, n. 1, p. 1, doi. 10.1186/s12864-020-6616-y

By:

Bernard, Anthony;
Marrano, Annarita;
Donkpegan, Armel;
Brown, Patrick J.;
Leslie, Charles A.;
Neale, David B.;
Lheureux, Fabrice;
Dirlewanger, Elisabeth

Publication type:

Article

Exome resequencing and GWAS for growth, ecophysiology, and chemical and metabolomic composition of wood of Populus trichocarpa.

Published in:

BMC Genomics, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s12864-019-6160-9

By:

Guerra, Fernando P.;
Suren, Haktan;
Holliday, Jason;
Richards, James H.;
Fiehn, Oliver;
Famula, Randi;
Stanton, Brian J.;
Shuren, Richard;
Sykes, Robert;
Davis, Mark F.;
Neale, David B.

Publication type:

Article

Development of a highly efficient Axiom™ 70 K SNP array for Pyrus and evaluation for high-density mapping and germplasm characterization.

Published in:

BMC Genomics, 2019, v. 20, n. 1, p. N.PAG, doi. 10.1186/s12864-019-5712-3

By:

Montanari, Sara;
Bianco, Luca;
Allen, Brian J.;
Martínez-García, Pedro J.;
Bassil, Nahla V.;
Postman, Joseph;
Knäbel, Mareike;
Kitson, Biff;
Deng, Cecilia H.;
Chagné, David;
Crepeau, Marc W.;
Langley, Charles H.;
Evans, Kate;
Dhingra, Amit;
Troggio, Michela;
Neale, David B.

Publication type:

Article

A genome sequence for the threatened whitebark pine.

Published in:

G3: Genes | Genomes | Genetics, 2024, v. 14, n. 5, p. 1, doi. 10.1093/g3journal/jkae061

By:

Neale, David B;
Zimin, Aleksey V;
Meltzer, Amy;
Bhattarai, Akriti;
Amee, Maurice;
Corona, Laura Figueroa;
Allen, Brian J;
Puiu, Daniela;
Wright, Jessica;
Torre, Amanda R De La;
McGuire, Patrick E;
Timp, Winston;
Salzberg, Steven L;
Wegrzyn, Jill L

Publication type:

Article

Assembled and annotated 26.5 Gbp coast redwood genome: a resource for estimating evolutionary adaptive potential and investigating hexaploid origin.

Published in:

G3: Genes | Genomes | Genetics, 2022, v. 12, n. 1, p. 1, doi. 10.1093/g3journal/jkab380

By:

Neale, David B.;
Zimin, Aleksey V.;
Zaman, Sumaira;
Scott, Alison D.;
Shrestha, Bikash;
Workman, Rachael E.;
Puiu, Daniela;
Allen, Brian J.;
Moore, Zane J.;
Sekhwal, Manoj K.;
De La Torre, Amanda R.;
McGuire, Patrick E.;
Burns, Emily;
Timp, Winston;
Wegrzyn, Jill L.;
Salzberg, Steven L.

Publication type:

Article

Genetic Analysis of Walnut (Juglans regia L.) Pellicle Pigment Variation Through a Novel, High-Throughput Phenotyping Platform.

Published in:

G3: Genes | Genomes | Genetics, 2020, v. 10, n. 12, p. 4411, doi. 10.1534/g3.120.401580

By:

Sideli, Gina M.;
McAtee, Peter;
Marrano, Annarita;
Allen, Brian J.;
Brown, Patrick J.;
Butterfield, Timothy S.;
Dandekar, Abhaya M.;
Leslie, Charles A.;
Neale, David B.

Publication type:

Article

A Reference Genome Sequence for Giant Sequoia.

Published in:

G3: Genes | Genomes | Genetics, 2020, v. 10, n. 11, p. 3907, doi. 10.1534/g3.120.401612

By:

Scott, Alison D.;
Zimin, Aleksey V.;
Puiu, Daniela;
Workman, Rachael;
Britton, Monica;
Zaman, Sumaira;
Caballero, Madison;
Read, Andrew C.;
Bogdanove, Adam J.;
Burns, Emily;
Wegrzyn, Jill;
Timp, Winston;
Salzberg, Steven L.;
Neale, David B.

Publication type:

Article

Reconstruction of the largest pedigree network for pear cultivars and evaluation of the genetic diversity of the USDA-ARS National Pyrus collection.

Published in:

G3: Genes | Genomes | Genetics, 2020, v. 10, n. 9, p. 1, doi. 10.1534/g3.120.401327

By:

Montanari, Sara;
Postman, Joseph;
Bassil, Nahla V.;
Neale, David B.

Publication type:

Article

Genomic Variation Among and Within Six Juglans Species.

Published in:

G3: Genes | Genomes | Genetics, 2018, v. 8, n. 7, p. 2153, doi. 10.1534/g3.118.200030

By:

Stevens, Kristian A.;
Woeste, Keith;
Chakraborty, Sandeep;
Crepeau, Marc W.;
Leslie, Charles A.;
Martínez-García, Pedro J.;
Puiu, Daniela;
Romero-Severson, Jeanne;
Coggeshall, Mark;
Dandekar, Abhaya M.;
Kluepfel, Daniel;
Neale, David B.;
Salzberg, Steven L.;
Langley, Charles H.

Publication type:

Article

Comparative Transcriptomics Among Four White Pine Species.

Published in:

G3: Genes | Genomes | Genetics, 2018, v. 8, n. 5, p. 1461, doi. 10.1534/g3.118.200257

By:

Baker, Ethan A. G.;
Wegrzyn, Jill L.;
Sezen, Uzay U.;
Falk, Taylor;
Maloney, Patricia E.;
Vogler, Detlev R.;
Delfino-Mix, Annette;
Jensen, Camille;
Mitton, Jeffry;
Wright, Jessica;
Knaus, Brian;
Rai, Hardeep;
Cronn, Richard;
Gonzalez-Ibeas, Daniel;
Vasquez-Gross, Hans A.;
Famula, Randi A.;
Jun-Jun Liu;
Kueppers, Lara M.;
Neale, David B.

Publication type:

Article

The Douglas-Fir Genome Sequence Reveals Specialization of the Photosynthetic Apparatus in Pinaceae.

Published in:

G3: Genes | Genomes | Genetics, 2017, v. 7, n. 9, p. 3157, doi. 10.1534/g3.117.300078

By:

Neale, David B.;
McGuire, Patrick E.;
Wheeler, Nicholas C.;
Stevens, Kristian A.;
Crepeau, Marc W.;
Cardeno, Charis;
Zimin, Aleksey V.;
Puiu, Daniela;
Pertea, Geo M.;
Sezen, U. Uzay;
Casola, Claudio;
Koralewski, Tomasz E.;
Paul, Robin;
Gonzalez-Ibeas, Daniel;
Zaman, Sumaira;
Cronn, Richard;
Yandell, Mark;
Holt, Carson;
Langley, Charles H.;
Yorke, James A.

Publication type:

Article

Assessing the Gene Content of the Megagenome: Sugar Pine (Pinus lambertiana).

Published in:

G3: Genes | Genomes | Genetics, 2016, v. 6, n. 12, p. 3787, doi. 10.1534/g3.116.032805

By:

Gonzalez-Ibeas, Daniel;
Martinez-Garcia, Pedro J.;
Famula, Randi A.;
Delfino-Mix, Annette;
Stevens, Kristian A.;
Loopstra, Carol A.;
Langley, Charles H.;
Neale, David B.;
Wegrzyn, Jill L.

Publication type:

Article

A Consensus Genetic Map for Pinus taeda and Pinus elliottii and Extent of Linkage Disequilibrium in Two Genotype-Phenotype Discovery Populations of Pinus taeda.

Published in:

G3: Genes | Genomes | Genetics, 2015, v. 5, n. 8, p. 1685, doi. 10.1534/g3.115.019588

By:

Westbrook, Jared W.;
Chhatre, Vikram E.;
Le-Shin Wu;
Chamala, Srikar;
Gomide Neves, Leandro;
Muñoz, Patricio;
Martínez-García, Pedro J.;
Neale, David B.;
Kirst, Matias;
Mockaitis, Keithanne;
Dana Nelson, C.;
Peter, Gary F.;
Davis, John M.;
Echt, Craig S.

Publication type:

Article

Combining phenotype, genotype, and environment to uncover genetic components underlying water use efficiency in Persian walnut.

Published in:

Journal of Experimental Botany, 2020, v. 71, n. 3, p. 1107, doi. 10.1093/jxb/erz467

By:

Arab, Mohammad M;
Marrano, Annarita;
Abdollahi-Arpanahi, Rostam;
Leslie, Charles A;
Cheng, Hao;
Neale, David B;
Vahdati, Kourosh

Publication type:

Article

Selective Sweeps and Polygenic Adaptation Drive Local Adaptation along Moisture and Temperature Gradients in Natural Populations of Coast Redwood and Giant Sequoia.

Published in:

Genes, 2021, v. 12, n. 11, p. 1826, doi. 10.3390/genes12111826

By:

De La Torre, Amanda R.;
Sekhwal, Manoj K.;
Neale, David B.

Publication type:

Article

Dissecting the Polygenic Basis of Cold Adaptation Using Genome-Wide Association of Traits and Environmental Data in Douglas-fir.

Published in:

Genes, 2021, v. 12, n. 1, p. 110, doi. 10.3390/genes12010110

By:

De La Torre, Amanda R.;
Wilhite, Benjamin;
Puiu, Daniela;
St. Clair, John Bradley;
Crepeau, Marc W.;
Salzberg, Steven L.;
Langley, Charles H.;
Allen, Brian;
Neale, David B.

Publication type:

Article

Environmental Genome-Wide Association Reveals Climate Adaptation Is Shaped by Subtle to Moderate Allele Frequency Shifts in Loblolly Pine.

Published in:

Genome Biology & Evolution, 2019, v. 11, n. 10, p. 2976, doi. 10.1093/gbe/evz220

By:

Torre, Amanda R De La;
Wilhite, Benjamin;
Neale, David B

Publication type:

Article

TreeGenes: A Forest Tree Genome Database.

Published in:

International Journal of Plant Genomics, 2008, v. 2008, p. 1, doi. 10.1155/2008/412875

By:

Wegrzyn, Jill L.;
Lee, Jennifer M.;
Tearse, Brandon R.;
Neale, David B.

Publication type:

Article

An empirical evaluation of two-stage species tree inference strategies using a multilocus dataset from North American pines.

Published in:

BMC Evolutionary Biology, 2014, v. 14, n. 1, p. 1, doi. 10.1186/1471-2148-14-67

By:

DeGiorgio, Michael;
Syring, John;
Eckert, Andrew J;
Liston, Aaron;
Cronn, Richard;
Neale, David B;
Rosenberg, Noah A

Publication type:

Article

Quantitative trait loci influencing forking defects in an outbred pedigree of loblolly pine.

Published in:

BMC Genetics, 2016, v. 17, p. 1, doi. 10.1186/s12863-016-0446-6

By:

Xiong, Jin S.;
McKeand, Steven E.;
Isik, Fikret;
Wegrzyn, Jill;
Neale, David B.;
Zhao-Bang Zeng;
da Costa e Silva, Luciano;
Whetten, Ross W.

Publication type:

Article

PineSAP—sequence alignment and SNP identification pipeline.

Published in:

Bioinformatics, 2009, v. 25, n. 19, p. 2609, doi. 10.1093/bioinformatics/btp477

By:

Wegrzyn, Jill L.;
Lee, Jennifer M.;
Liechty, John;
Neale, David B.

Publication type:

Article

Forest tree genomics: growing resources and applications.

Published in:

2011

By:

Neale, David B.;
Kremer, Antoine

Publication type:

journal article

Discovering candidate genes that regulate resin canal number in Pinus taeda stems by integrating genetic analysis across environments, ages, and populations.

Published in:

New Phytologist, 2015, v. 205, n. 2, p. 627, doi. 10.1111/nph.13074

By:

Westbrook, Jared W.;
Walker, Alejandro R.;
Neves, Leandro G.;
Munoz, Patricio;
Resende, Marcio F. R.;
Neale, David B.;
Wegrzyn, Jill L.;
Huber, Dudley A.;
Kirst, Matias;
Davis, John M.;
Peter, Gary F.

Publication type:

Article

Environmental versus geographical determinants of genetic structure in two subalpine conifers.

Published in:

New Phytologist, 2014, v. 201, n. 1, p. 180, doi. 10.1111/nph.12476

By:

Mosca, Elena;
González‐Martínez, Santiago C.;
Neale, David B.

Publication type:

Article

Association genetics of oleoresin flow in loblolly pine: discovering genes and predicting phenotype for improved resistance to bark beetles and bioenergy potential.

Published in:

New Phytologist, 2013, v. 199, n. 1, p. 89, doi. 10.1111/nph.12240

By:

Westbrook, Jared W.;
Resende, Marcio F. R.;
Munoz, Patricio;
Walker, Alejandro R.;
Wegrzyn, Jill L.;
Nelson, C. Dana;
Neale, David B.;
Kirst, Matias;
Huber, Dudley A.;
Gezan, Salvador A.;
Peter, Gary F.;
Davis, John M.

Publication type:

Article

Association genetics of chemical wood properties in black poplar ( Populus nigra).

Published in:

New Phytologist, 2013, v. 197, n. 1, p. 162, doi. 10.1111/nph.12003

By:

Guerra, Fernando P.;
Wegrzyn, Jill L.;
Sykes, Robert;
Davis, Mark F.;
Stanton, Brian J.;
Neale, David B.

Publication type:

Article

Association genetics of the loblolly pine (Pinus taeda, Pinaceae) metabolome.

Published in:

New Phytologist, 2012, v. 193, n. 4, p. 890, doi. 10.1111/j.1469-8137.2011.03976.x

By:

Eckert, Andrew J.;
Wegrzyn, Jill L.;
Cumbie, W. Patrick;
Goldfarb, Barry;
Huber, Dudley A.;
Tolstikov, Vladimir;
Fiehn, Oliver;
Neale, David B.

Publication type:

Article

Association genetics of the loblolly pine ( Pinus taeda, Pinaceae) metabolome.

Published in:

New Phytologist, 2012, v. 193, n. 4, p. 890, doi. 10.1111/j.1469-8137.2011.03976.x

By:

Eckert, Andrew J.;
Wegrzyn, Jill L.;
Cumbie, W. Patrick;
Goldfarb, Barry;
Huber, Dudley A.;
Tolstikov, Vladimir;
Fiehn, Oliver;
Neale, David B.

Publication type:

Article

Association genetics of traits controlling lignin and cellulose biosynthesis in black cottonwood ( Populus trichocarpa, Salicaceae) secondary xylem.

Published in:

New Phytologist, 2010, v. 188, n. 2, p. 515, doi. 10.1111/j.1469-8137.2010.03415.x

By:

Wegrzyn, Jill L.;
Eckert, Andrew J.;
Choi, Minyoung;
Lee, Jennifer M.;
Stanton, Brian J.;
Sykes, Robert;
Davis, Mark F.;
Tsai, Chung-Jui;
Neale, David B.

Publication type:

Article

Forest-tree population genomics and adaptive evolution.

Published in:

New Phytologist, 2006, v. 170, n. 2, p. 227, doi. 10.1111/j.1469-8137.2006.01686.x

By:

González-Martínez, Santiago C.;
Krutovsky, Konstantin V.;
Neale, David B.

Publication type:

Article

The Evolution of Forest Genetics and Tree Improvement Research in the United States.

Published in:

Journal of Forestry, 2015, v. 113, n. 5, p. 500, doi. 10.5849/jof.14-120

By:

Wheeler, Nicholas C.;
Steiner, Kim C.;
Schlarbaum, Scott E.;
Neale, David B.

Publication type:

Article

Mapping of quantitative trait loci controlling adaptive traits in coastal Douglas-fir. IV. Cold-hardiness QTL verification and candidate gene mapping.

Published in:

Molecular Breeding, 2005, v. 15, n. 2, p. 145, doi. 10.1007/s11032-004-3978-9

By:

Wheeler, Nicholas C.;
Jermstad, Kathleen D.;
Krutovsky, Konstantin;
Aitken, Sally N.;
Howe, Glenn T.;
Krakowski, Jodie;
Neale, David B.

Publication type:

Article

CartograTree: connecting tree genomes, phenotypes and environment.

Published in:

Molecular Ecology Resources, 2013, v. 13, n. 3, p. 528, doi. 10.1111/1755-0998.12067

By:

Vasquez‐Gross, Hans A.;
Yu, John J.;
Figueroa, Ben;
Gessler, Damian D. G.;
Neale, David B.;
Wegrzyn, Jill L.

Publication type:

Article

DnaSAM: Software to perform neutrality testing for large datasets with complex null models.

Published in:

Molecular Ecology Resources, 2010, v. 10, n. 3, p. 542, doi. 10.1111/j.1755-0998.2009.02768.x

By:

ECKERT, ANDREW J.;
LIECHTY, JOHN D.;
TEARSE, BRANDON R.;
PANDE, BARNALY;
NEALE, DAVID B.

Publication type:

Article

Contrasting patterns of nucleotide diversity for four conifers of Alpine European forests.

Published in:

Evolutionary Applications, 2012, v. 5, n. 7, p. 762, doi. 10.1111/j.1752-4571.2012.00256.x

By:

Mosca, Elena;
Eckert, Andrew J.;
Liechty, John D.;
Wegrzyn, Jill L.;
La Porta, Nicola;
Vendramin, Giovanni G.;
Neale, David B.

Publication type:

Article

Environmental effects on fine‐scale spatial genetic structure in four Alpine keystone forest tree species.

Published in:

Molecular Ecology, 2018, v. 27, n. 3, p. 647, doi. 10.1111/mec.14469

By:

Mosca, Elena;
Di Pierro, Erica A.;
Budde, Katharina B.;
Neale, David B.;
González‐Martínez, Santiago C.

Publication type:

Article

High rate of adaptive evolution in two widespread European pines.

Published in:

Molecular Ecology, 2017, v. 26, n. 24, p. 6857, doi. 10.1111/mec.14402

By:

Grivet, Delphine;
Avia, Komlan;
Vaattovaara, Aleksia;
Eckert, Andrew J.;
Neale, David B.;
Savolainen, Outi;
González‐Martínez, Santiago C.

Publication type:

Article