Research Output 1982 2019

2019
Open Access
Pseudomonas syringae pv. pisi
Pseudomonas syringae
Horizontal Gene Transfer
gene transfer
Virulence Factors
2 Citations (Scopus)

A DNase from a Fungal Phytopathogen Is a Virulence Factor Likely Deployed as Counter Defense against Host-Secreted Extracellular DNA

Park, H. J., Wang, W., Curlango-Rivera, G., Xiong, Z., Lin, Z., Huskey, D. A., Hawes, M. C., VanEtten, H. D. & Turgeon, B. G., Mar 5 2019, In : mBio. 10, 2

Research output: Contribution to journalArticle

Open Access
Deoxyribonucleases
Virulence Factors
Virulence
DNA
Genes
2 Citations (Scopus)

A Fruitful Journey: Pollen Tube Navigation from Germination to Fertilization

Johnson, M. A., Harper, J. F. & Palanivelu, R., Apr 1 2019, In : Annual Review of Plant Biology. 70, p. 809-837 29 p.

Research output: Contribution to journalReview article

Pollen Tube
fertilization (reproduction)
Germination
Pollen
pollen tubes

Age-related variation in the oral microbiome of urban Cooper's hawks (Accipiter cooperii)

Taylor, M. J., Mannan, R. W., U'Ren, J. M., Garber, N. P., Gallery, R. E. & Arnold, A. E., Feb 21 2019, In : BMC Microbiology. 19, 1, 47.

Research output: Contribution to journalArticle

Open Access
Hawks
Microbiota
Raptors
Mouth
Birds

Alternaria induces airway epithelial cytokine expression independent of protease-activated receptor

Daines, M. O., Zhu, L., Pereira, R., Zhou, X., Bondy, C., Pryor, B. M., Zhou, J. & Chen, Y., Jan 1 2019, (Accepted/In press) In : Respirology.

Research output: Contribution to journalArticle

Proteinase-Activated Receptors
Alternaria
PAR-2 Receptor
Epithelium
Cytokines
2 Citations (Scopus)

Application of deoxygenation-aeration cycling to control the predatory bacterium Vampirovibrio chlorellavorus in Chlorella sorokiniana cultures

Attalah, S., Waller, P. M., Steichen, S., Gao, S., Brown, C. C., Ogden, K. L. & Brown, J. K., May 1 2019, In : Algal Research. 39, 101427.

Research output: Contribution to journalArticle

Chlorella sorokiniana
aeration
bacteria
coculture
anaerobic conditions

Author Correction: Origin and evolution of the octoploid strawberry genome (Nature Genetics, (2019), 51, 3, (541-547), 10.1038/s41588-019-0356-4)

Edger, P. P., Poorten, T. J., VanBuren, R., Hardigan, M. A., Colle, M., McKain, M. R., Smith, R. D., Teresi, S. J., Nelson, A. D. L., Wai, C. M., Alger, E. I., Bird, K. A., Yocca, A. E., Pumplin, N., Ou, S., Ben-Zvi, G., Brodt, A., Baruch, K., Swale, T., Shiue, L. & 9 others, Acharya, C. B., Cole, G. S., Mower, J. P., Childs, K. L., Jiang, N., Lyons, E. H., Freeling, M., Puzey, J. R. & Knapp, S. J., Apr 1 2019, In : Nature Genetics. 51, 4, 1 p.

Research output: Contribution to journalComment/debate

Open Access
Fragaria
Genome

Chickspress: a resource for chicken gene expression

McCarthy, F. M., Pendarvis, K., Cooksey, A. M., Gresham, C. R., Bomhoff, M., Davey, S., Lyons, E. H., Sonstegard, T. S., Bridges, S. M. & Burgess, S. C., Jan 1 2019, In : Database : the journal of biological databases and curation. 2019

Research output: Contribution to journalArticle

Open Access
Gene expression
Chickens
Genes
chickens
Gene Expression

Chocolate under threat from old and new cacao diseases

Marelli, J. P., Guest, D. I., Bailey, B. A., Evans, H. C., Brown, J. K., Junaid, M., Barreto, R. W., Lisboa, D. O. & Puig, A. S., Jan 1 2019, In : Phytopathology. 109, 8, p. 1331-1343 13 p.

Research output: Contribution to journalReview article

Open Access
Moniliophthora perniciosa
virology
mycology
chocolate
Basidiomycota

Complete genome sequence of luteibacter pinisoli MAH-14

Baltrus, D. A., Clark, M., Inderbitzin, P., Pignatta, D., Knight-Connoni, V. & Arnold, A. E., Jul 18 2019, In : Microbiology Resource Announcements. 8, 29, e00774-19.

Research output: Contribution to journalArticle

Open Access
Gammaproteobacteria
Fungi
Genome

Coniochaeta endophytica sp. nov., a foliar endophyte associated with healthy photosynthetic tissue of Platycladus orientalis (Cupressaceae)

Harrington, A. H., Olmo-Ruiz, M. D., U'Ren, J. M., Garcia, K., Pignatta, D., Wespe, N., Sandberg, D. C., Huang, Y. L., Hoffman, M. T. & Arnold, A. E., Jun 1 2019, In : Plant and Fungal Systematics. 64, 1, p. 65-79 15 p.

Research output: Contribution to journalArticle

Open Access
Coniochaeta
Platycladus orientalis
Cupressaceae
endophytes
Coniochaetaceae

Cost minimization of deoxygenation for control of Vampirovibrio chlorellavorus in Chlorella sorokiniana cultures

Attalah, S., Waller, P. M., Steichen, S., Brown, C. C., Mehdipour, Y., Ogden, K. L. & Brown, J. K., Sep 1 2019, In : Algal Research. 42, 101615.

Research output: Contribution to journalArticle

Chlorella sorokiniana
raceways
nitrogen
algae
gases

Demographic expansion of the predominant Bemisia tabaci (Gennadius) (Hemiptera: Aleyrodidae) mitotypes associated with the cotton leaf curl virus epidemic in Pakistan

Paredes-Montero, J. R., Hameed, U., Zia-Ur-Rehman, M., Rasool, G., Haider, M. S., Herrmann, H. W. & Brown, J. K., May 1 2019, In : Annals of the Entomological Society of America. 112, 3, p. 265-280 16 p.

Research output: Contribution to journalArticle

Bemisia tabaci
Aleyrodidae
Pakistan
Hemiptera
demographic statistics
1 Citation (Scopus)

Differential food protein-induced inflammatory responses in swine lines selected for reactivity to soy antigens

Hashimoto-Hill, S., Kim, M., Friesen, L., Ajuwon, K. M., Herman, E. M., Schinckel, A. & Kim, C. H., Jan 1 2019, In : Allergy: European Journal of Allergy and Clinical Immunology.

Research output: Contribution to journalLetter

Swine
Antigens
Food
Proteins
1 Citation (Scopus)

Drought-tolerant barley: I. Field observations of growth and development

Carter, A. Y., Hawes, M. C. & Ottman, M. J., May 30 2019, In : Agronomy. 9, 5, 221.

Research output: Contribution to journalArticle

Open Access
growth and development
barley
drought
irrigation
water

Drought-tolerant barley: II. Root Tip characteristics in Emerging Roots

Carter, A. Y., Ottman, M. J., Curlango-Rivera, G., Huskey, D. A., D’Agostini, B. A. & Hawes, M. C., May 30 2019, In : Agronomy. 9, 5, 220.

Research output: Contribution to journalArticle

Open Access
root tips
barley
drought
mucilages
root hairs
2 Citations (Scopus)

First report of cotton leafroll dwarf virus associated with cotton blue disease symptoms in Alabama

Avelar, S., Schrimsher, D. W., Lawrence, K. & Brown, J. K., Mar 1 2019, In : Plant Disease. 103, 3, 1 p.

Research output: Contribution to journalArticle

cotton
Cotton leafroll dwarf virus
1 Citation (Scopus)

Functional screening of genes from a halophyte wild rice relative Porteresia coarctata in Arabidopsis model identifies candidate genes involved in salt tolerance

Mangu, V. R., Ratnasekera, D., Yabes, J. C., Wing, R. A. & Baisakh, N., Jan 1 2019, In : Current Plant Biology. 100107.

Research output: Contribution to journalArticle

Open Access
Salt-Tolerance
wild rice
salt tolerance
Arabidopsis
Screening

Independent modulation of individual genomic component transcription and a cis-acting element related to high transcriptional activity in a multipartite DNA virus

Yu, N. T., Xie, H. M., Zhang, Y. L., Wang, J. H., Xiong, Z. & Liu, Z. X., Jul 11 2019, In : BMC genomics. 20, 1, 573.

Research output: Contribution to journalArticle

Open Access
Babuvirus
DNA Viruses
DNA
Viral Structures
Polymerase Chain Reaction

Integrating a newly developed BAC-based physical mapping resource for Lolium perenne with a genome-wide association study across a L. perenne European ecotype collection identifies genomic contexts associated with agriculturally important traits

Harper, J., De Vega, J., Swain, S., Heavens, D., Gasior, D., Thomas, A., Evans, C., Lovatt, A., Lister, S., Thorogood, D., Skøt, L., Hegarty, M., Blackmore, T., Kudrna, D. A., Byrne, S., Asp, T., Powell, W., Fernandez-Fuentes, N. & Armstead, I., Jun 24 2019, In : Annals of botany. 123, 6, p. 977-992 16 p.

Research output: Contribution to journalArticle

Open Access
bacterial artificial chromosomes
physical chromosome mapping
ecotypes
Lolium
Lolium perenne
diurnal variation
beetle
Coleoptera
fungi
resource

Just the Two of Us? A Family of Pseudomonas Megaplasmids Offers a Rare Glimpse into the Evolution of Large Mobile Elements

Smith, B. A., Leligdon, C. & Baltrus, D. A., Apr 1 2019, In : Genome biology and evolution. 11, 4, p. 1192-1206 15 p.

Research output: Contribution to journalArticle

Open Access
Pseudomonas
plasmids
Gene Order
gene
Genes
1 Citation (Scopus)

Linking duplication of a calcium sensor to salt tolerance in eutrema salsugineum

Monihan, S. M., Ryu, C. H., Magness, C. A. & Schumaker, K. S., Mar 1 2019, In : Plant physiology. 179, 3, p. 1176-1192 17 p.

Research output: Contribution to journalArticle

Open Access
Eutrema
Salt-Tolerance
salt tolerance
Salts
Calcium
1 Citation (Scopus)

Maternal small RNAs mediate spatial-temporal regulation of gene expression, imprinting, and seed development in Arabidopsis

Kirkbride, R. C., Lu, J., Zhang, C., Harris, R. A. M., Baulcombe, D. C. & Jeffrey Chen, Z., Feb 12 2019, In : Proceedings of the National Academy of Sciences of the United States of America. 116, 7, p. 2761-2766 6 p.

Research output: Contribution to journalArticle

Gene Expression Regulation
Arabidopsis
Small Interfering RNA
Seeds
Endosperm
1 Citation (Scopus)

Native and Invading Yellow Starthistle (Centaurea solstitialis) Microbiomes Differ in Composition and Diversity of Bacteria

Lu-Irving, P., Harenčár, J. G., Sounart, H., Welles, S. R., Swope, S. M., Baltrus, D. A. & Dlugosch, K. M., Mar 6 2019, In : mSphere. 4, 2

Research output: Contribution to journalArticle

Open Access
Centaurea
Microbiota
Bacteria
Microbial Interactions
Population

Optimizing Periplasmic Expression in Escherichia coli for the Production of Recombinant Proteins Tagged with the Small Metal-Binding Protein SmbP

Santos, B. D., Morones-Ramirez, J. R., Balderas-Renteria, I., Casillas-Vega, N. G., Galbraith, D. W. & Zarate, X., Jun 1 2019, In : Molecular Biotechnology. 61, 6, p. 451-460 10 p.

Research output: Contribution to journalArticle

Recombinant proteins
Recombinant Proteins
Escherichia coli
Carrier Proteins
Metals
7 Citations (Scopus)

Origin and evolution of the octoploid strawberry genome

Edger, P. P., Poorten, T. J., VanBuren, R., Hardigan, M. A., Colle, M., McKain, M. R., Smith, R. D., Teresi, S. J., Nelson, A. D. L., Wai, C. M., Alger, E. I., Bird, K. A., Yocca, A. E., Pumplin, N., Ou, S., Ben-Zvi, G., Brodt, A., Baruch, K., Swale, T., Shiue, L. & 9 others, Acharya, C. B., Cole, G. S., Mower, J. P., Childs, K. L., Jiang, N., Lyons, E. H., Freeling, M., Puzey, J. R. & Knapp, S. J., Jan 1 2019, In : Nature Genetics.

Research output: Contribution to journalArticle

Open Access
Fragaria
Genome
Diploidy
Chromosomes
DNA Shuffling
1 Citation (Scopus)

Progress in single-access information systems for wheat and rice crop improvement

Scheben, A., Chan, C. K. K., Mansueto, L., Mauleon, R., Larmande, P., Alexandrov, N., Wing, R. A., McNally, K. L., Quesneville, H. & Edwards, D., Mar 25 2019, In : Briefings in bioinformatics. 20, 2, p. 565-571 7 p.

Research output: Contribution to journalArticle

Information Systems
Triticum
Crops
Information systems
Informatics
4 Citations (Scopus)

Rapid evolution of protein diversity by de novo origination in Oryza

Zhang, L., Ren, Y., Yang, T., Li, G., Chen, J., Gschwend, A. R., Yu, Y., Hou, G., Zi, J., Zhou, R., Wen, B., Zhang, J. ., Chougule, K., Wang, M., Copetti, D., Peng, Z., Zhang, C., Zhang, Y., Ouyang, Y., Wing, R. A. & 2 others, Liu, S. & Long, M., Apr 1 2019, In : Nature Ecology and Evolution. 3, 4, p. 679-690 12 p.

Research output: Contribution to journalArticle

Open Access
Oryza
protein
gene
genes
proteins

Recessive Host Range Mutants and Unsusceptible Cells That Inactivate Virions without Genome Penetration: Ecological and Technical Implications

Roznowski, A. P., Young, R. J., Love, S. D., Andromita, A. A., Guzman, V. A., Wilch, M. H., Block, A., McGill, A., Lavelle, M., Romanova, A., Sekiguchi, A., Wang, M., Burch, A. D. & Fane, B. A., Feb 1 2019, In : Journal of virology. 93, 3

Research output: Contribution to journalArticle

Host Specificity
virion
host range
Virion
Genome
1 Citation (Scopus)

Resolving structure and function of metaorganisms through a holistic framework combining reductionist and integrative approaches

Consortium of Australian Academy of Science Boden Research Conference Participants, Apr 1 2019, In : Zoology. 133, p. 81-87 7 p.

Research output: Contribution to journalReview article

Open Access
microorganisms
research support
Archaea
symbiosis
eukaryotic cells
1 Citation (Scopus)

Structural variants in 3000 rice genomes

Fuentes, R. R., Chebotarov, D., Duitama, J., Smith, S., De la Hoz, J. F., Mohiyuddin, M., Wing, R. A., McNally, K. L., Tatarinova, T., Grigoriev, A., Mauleon, R. & Alexandrov, N., May 1 2019, In : Genome Research. 29, 5, p. 870-880 11 p.

Research output: Contribution to journalArticle

Open Access
Genome
5' Untranslated Regions
Genome-Wide Association Study
Computational Biology
Genes

Tail Wags the Dog? Functional Gene Classes Driving Genome-Wide GC Content in Plasmodium spp

Castillo, A. I., Nelson, A. D. L. & Lyons, E. H., Feb 1 2019, In : Genome biology and evolution. 11, 2, p. 497-507 11 p.

Research output: Contribution to journalArticle

Open Access
Plasmodium
cytosine
guanine
Base Composition
Tail

T-BAs version 2.1: Tree-based alignment selector toolkit for evolutionary placement of DNA sequences and viewing alignments and specimen metadata on curated and custom trees

Carbone, I., White, J. B., Miadlikowska, J., Arnold, A. E., Miller, M. A., Magain, N., U'Ren, J. M. & Lutzoni, F., Jul 18 2019, In : Microbiology Resource Announcements. 8, 29, e00328-19.

Research output: Contribution to journalArticle

Open Access
Sequence Alignment
Biodiversity
Licensure
Phylogeny
Metadata

The Extended Genotype: To What Extent? A Comment on Carthey et al.

Morimoto, J. & Baltrus, D. A., Mar 1 2019, In : Trends in Ecology and Evolution. 34, 3, p. 186-187 2 p.

Research output: Contribution to journalLetter

Genotype

The Genomics of Oryza Species Provides Insights into Rice Domestication and Heterosis

Chen, E., Huang, X., Tian, Z., Wing, R. A. & Han, B., Apr 1 2019, In : Annual Review of Plant Biology. 70, p. 639-665 27 p.

Research output: Contribution to journalReview article

Hybrid Vigor
Oryza
Genomics
domestication
heterosis

The infection of its insect vector by bacterial plant pathogen “Candidatus Liberibacter solanacearum” is associated with altered vector physiology

Molki, B., Ha, P. T., Cohen, A. L., Crowder, D. W., Gang, D. R., Omsland, A., Brown, J. K. & Beyenal, H., Oct 1 2019, In : Enzyme and Microbial Technology. 129, 109358.

Research output: Contribution to journalArticle

Insect Vectors
Hemiptera
Physiology
Pathogens
Infection
1 Citation (Scopus)

The Previously Unidentified, Divergent Badnavirus Species Cacao red vein-banding virus is Associated with Cacao Swollen Shoot Disease in Nigeria

Chingandu, N., Dongo, L., Gutierrez, O. A. & Brown, J. K., Jun 1 2019, In : Plant disease. 103, 6, p. 1302-1308 7 p.

Research output: Contribution to journalArticle

Badnavirus
plant veins
Nigeria
viruses
shoots

Vampirovibrio chlorellavorus draft genome sequence, annotation, and preliminary characterization of pathogenicity determinants

Hovde, B. T., Steichen, S. A., Starkenburg, S. R. & Brown, J. K., Jan 1 2019, In : Phycological Research.

Research output: Contribution to journalArticle

Open Access
pathogenicity
Virulence
genome
Genome
protein
2018
3 Citations (Scopus)

Abscisic acid catabolism enhances dormancy release of grapevine buds

Zheng, C., Acheampong, A. K., Shi, Z., Mugzech, A., Halaly-Basha, T., Shaya, F., Sun, Y., Colova, V., Mosquna, A., Ophir, R., Galbraith, D. W. & Or, E., Jan 1 2018, (Accepted/In press) In : Plant Cell and Environment.

Research output: Contribution to journalArticle

Abscisic Acid
dormancy
abscisic acid
buds
metabolism

A Chemical Biology Approach to Model Pontocerebellar Hypoplasia Type 1B (PCH1B)

François-Moutal, L., Jahanbakhsh, S., Nelson, A. D. L., Ray, D., Scott, D. D., Hennefarth, M. R., Moutal, A., Perez-Miller, S., Ambrose, A. J., Al-Shamari, A., Coursodon, P., Meechoovet, B., Reiman, R., Lyons, E. H., Beilstein, M. A., Chapman, E., Morris, Q. D., Van Keuren-Jensen, K., Hughes, T. R., Khanna, R. & 4 others, Koehler, C., Jen, J., Gokhale, V. & Khanna, M., Jan 1 2018, (Accepted/In press) In : ACS Chemical Biology.

Research output: Contribution to journalArticle

RNA
Thermophoresis
Zebrafish
Molecules
Exosome Multienzyme Ribonuclease Complex
3 Citations (Scopus)
Endophytes
Cloning
endophytes
Fungi
herbaria
5 Citations (Scopus)

A Spatiotemporal DNA Endoploidy Map of the Arabidopsis Root Reveals Roles for the Endocycle in Root Development and Stress Adaptation

Bhosale, R., Boudolf, V., Cuevas, F., Lu, R., Eekhout, T., Hu, Z., Van Isterdael, G., Lambert, G. M., Xu, F., Nowack, M. K., Smith, R. S., Vercauteren, I., De Rycke, R., Storme, V., Beeckman, T., Larkin, J. C., Kremer, A., Höfte, H., Galbraith, D. W., Kumpf, R. P. & 2 others, Maere, S. & De Veylder, L., Oct 1 2018, In : The Plant cell. 30, 10, p. 2330-2351 22 p.

Research output: Contribution to journalArticle

Endoreduplication
endopolyploidy
Arabidopsis
DNA
Polyploidy
2 Citations (Scopus)

Aspergillus texensis: A novel aflatoxin producer with s morphology from the united states

Singh, P., Orbach, M. J. & Cotty, P. J., Dec 1 2018, In : Toxins. 10, 12, 513.

Research output: Contribution to journalArticle

Aflatoxins
Aspergillus
Fungi
Genes
Nitrate Reductase
4 Citations (Scopus)

Association of Vampirovibrio chlorellavorus with decline and death of Chlorella sorokiniana in outdoor reactors

Park, S. H., Steichen, S. A., Li, X., Ogden, K. L. & Brown, J. K., Jan 1 2018, (Accepted/In press) In : Journal of Applied Phycology.

Research output: Contribution to journalArticle

Chlorella sorokiniana
raceways
polymerase chain reaction
death
amplification
2 Citations (Scopus)

A tutorial of diverse genome analysis tools found in the CoGe web-platform using Plasmodium spp. As a model

Castillo, A. I., Nelson, A. D. L., Haug-Baltzell, A. K. & Lyons, E. H., Jan 1 2018, In : Database. 2018, 2018

Research output: Contribution to journalArticle

Plasmodium
Workflow
Genes
Genome
genomics
1 Citation (Scopus)

Cellular distribution of secretory pathway markers in the haploid synergid cells of Arabidopsis thaliana

Jones, D. S., Liu, X., Willoughby, A. C., Smith, B. E., Palanivelu, R. & Kessler, S. A., Apr 1 2018, In : Plant Journal. 94, 1, p. 192-202 11 p.

Research output: Contribution to journalArticle

Secretory Pathway
Haploidy
Arabidopsis
haploidy
Pollen Tube

Characterization and functional biology of the soybean aleurone layer

Schmidt, M. & Herman, E. M., Dec 13 2018, In : BMC Plant Biology. 18, 1, 354.

Research output: Contribution to journalArticle

aleurone layer
soybeans
Biological Sciences
oilseed crops
cells
2 Citations (Scopus)

Chloroplast sequence variation and the efficacy of peptide nucleic acids for blocking host amplification in plant microbiome studies

Fitzpatrick, C. R., Lu-Irving, P., Copeland, J., Guttman, D. S., Wang, P. W., Baltrus, D. A., Dlugosch, K. M. & Johnson, M. T. J., Aug 18 2018, In : Microbiome. 6, 1, 144.

Research output: Contribution to journalArticle

Peptide Nucleic Acids
Microbiota
Chloroplasts
Asteraceae
Plastids
7 Citations (Scopus)

Comparative effects of hermetic and traditional storage devices on maize grain: Mycotoxin development, insect infestation and grain quality

Walker, S., Jaime, R. ., Kagot, V. & Probst, C., Jun 1 2018, In : Journal of Stored Products Research. 77, p. 34-44 11 p.

Research output: Contribution to journalArticle

Mycotoxins
mycotoxins
Zea mays
Insects
bags