Scholarly Works per year
Scholarly Works per year
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Search results
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2024
A high-performance computational workflow to accelerate GATK SNP detection across a 25-genome dataset
Zhou, Y., Kathiresan, N., Yu, Z., Rivera, L. F., Yang, Y., Thimma, M., Manickam, K., Chebotarov, D., Mauleon, R., Chougule, K., Wei, S., Gao, T., Green, C. D., Zuccolo, A., Xie, W., Ware, D., Zhang, J., McNally, K. L. & Wing, R. A., Dec 2024, In: BMC biology. 22, 1, 13.Research output: Contribution to journal › Article › peer-review
Open Access -
An NLR paralog Pit2 generated from tandem duplication of Pit1 fine-tunes Pit1 localization and function
Li, Y., Wang, Q., Jia, H., Ishikawa, K., Kosami, K. I., Ueba, T., Tsujimoto, A., Yamanaka, M., Yabumoto, Y., Miki, D., Sasaki, E., Fukao, Y., Fujiwara, M., Kaneko-Kawano, T., Tan, L., Kojima, C., Wing, R. A., Sebastian, A., Nishimura, H. & Fukada, F. & 6 others, , Dec 2024, In: Nature communications. 15, 1, 4610.Research output: Contribution to journal › Article › peer-review
Open Access -
A shock flash breaking out of a dusty red supergiant
Li, G., Hu, M., Li, W., Yang, Y., Wang, X., Yan, S., Hu, L., Zhang, J., Mao, Y., Riise, H., Gao, X., Sun, T., Liu, J., Xiong, D., Wang, L., Mo, J., Iskandar, A., Xi, G., Xiang, D. & Wang, L. & 24 others, , Mar 28 2024, In: Nature. 627, 8005, p. 754-758 5 p.Research output: Contribution to journal › Article › peer-review
19 Scopus citations -
A wave of specific transcript and protein accumulation accompanies pollen dehydration
Sze, H., Klodová, B., Ward, J. M., Harper, J. F., Palanivelu, R., Johnson, M. A. & Honys, D., Jul 2024, In: Plant physiology. 195, 3, p. 1775-1795 21 p.Research output: Contribution to journal › Article › peer-review
Open Access -
Biosynthesis of Cytosporones in Leotiomycetous Filamentous Fungi
Li, L., Zhong, W., Liu, H., Espinosa-Artiles, P., Xu, Y. M., Wang, C., Verdugo Robles, J. M., Paz, T. A., Cascaes Inácio, M., Chen, F., Xu, Y., Gunatilaka, A. A. L. & Molnár, I., Mar 6 2024, In: Journal of the American Chemical Society. 146, 9, p. 6189-6198 10 p.Research output: Contribution to journal › Article › peer-review
2 Scopus citations -
Charophytic Green Algae Encode Ancestral Polymerase IV/Polymerase V Subunits and a CLSY/DRD1 Homolog
Chakraborty, T., Trujillo, J. T., Kendall, T. & Mosher, R. A., Jun 1 2024, In: Genome biology and evolution. 16, 6, evae119.Research output: Contribution to journal › Article › peer-review
Open Access -
Complete genome characterization of cacao leafroll virus, a newly described cacao-infecting polerovirus
Adegbola, R. O., Keith, C. V., Gutierrez, O., Goenaga, R. & Brown, J. K., Apr 2024, In: Archives of virology. 169, 4, 83.Research output: Contribution to journal › Article › peer-review
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CyVerse: Cyberinfrastructure for open science
Swetnam, T. L., Antin, P. B., Bartelme, R., Bucksch, A., Camhy, D., Chism, G., Choi, I., Cooksey, A. M., Cosi, M., Cowen, C., Culshaw-Maurer, M., Davey, R., Davey, S., Devisetty, U., Edgin, T., Edmonds, A., Fedorov, D., Frady, J., Fonner, J. & Gillan, J. K. & 29 others, , Feb 2024, In: PLoS computational biology. 20, 2 February, e1011270.Research output: Contribution to journal › Article › peer-review
Open Access3 Scopus citations -
Decoding the gene regulatory network of endosperm differentiation in maize
Yuan, Y., Huo, Q., Zhang, Z., Wang, Q., Wang, J., Chang, S., Cai, P., Song, K. M., Galbraith, D. W., Zhang, W., Huang, L., Song, R. & Ma, Z., Dec 2024, In: Nature communications. 15, 1, 34.Research output: Contribution to journal › Article › peer-review
Open Access7 Scopus citations -
DEGAP: Dynamic elongation of a genome assembly path
Huang, Y., Wang, Z., Schmidt, M. A., Su, H., Xiong, L. & Zhang, J., May 1 2024, In: Briefings in bioinformatics. 25, 3, bbae194.Research output: Contribution to journal › Article › peer-review
Open Access -
Differential expression of “Candidatus Liberibacter solanacearum” genes and prophage loci in different life stages of potato psyllid
Saberi, E., Qureshi, J. A. & Brown, J. K., Dec 2024, In: Scientific reports. 14, 1, 16248.Research output: Contribution to journal › Article › peer-review
Open Access -
Discovery of a Unique Set of Dog-Seroreactive Coccidioides Proteins Using Nucleic Acid Programmable Protein Array
Koehler, M. A., Song, L., Grill, F. J., Shubitz, L. F., Powell, D. A., Galgiani, J. N., Orbach, M. J., Robb, E. J., Chung, Y., Williams, S. A., Murugan, V., Park, J. G., LaBaer, J., Lake, D. F. & Magee, D. M., May 2024, In: Journal of Fungi. 10, 5, 307.Research output: Contribution to journal › Article › peer-review
Open Access -
Disenfranchised DNA: biochemical analysis of mutant øX174 DNA-binding proteins may further elucidate the evolutionary significance of the unessential packaging protein A
Love, S. D., Posey, S., Burch, A. D. & Fane, B. A., Mar 2024, In: Journal of virology. 98, 3Research output: Contribution to journal › Article › peer-review
Open Access -
Environmental drivers and cryptic biodiversity hotspots define endophytes in Earth's largest terrestrial biome
U'Ren, J. M., Oita, S., Lutzoni, F., Miadlikowska, J., Ball, B., Carbone, I., May, G., Zimmerman, N. B., Valle, D., Trouet, V. & Arnold, A. E., Mar 11 2024, In: Current Biology. 34, 5, p. 1148-1156.e7Research output: Contribution to journal › Article › peer-review
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Fitness benefits of a synonymous substitution in an ancient EF-Tu gene depend on the genetic background
McGrath, K. M., Russell, S. J., Fer, E., Garmendia, E., Hosgel, A., Baltrus, D. A. & Kaçar, B., Feb 2024, In: Journal of bacteriology. 206, 2Research output: Contribution to journal › Article › peer-review
Open Access -
Fungal endophytes of the invasive grass Eragrostis lehmanniana shift metabolic expression in response to native and invasive grasses
Portman, T. A., Arnold, A. E., Bradley, R. G., Fehmi, J. S., Rasmussen, C. & Tfaily, M. M., Apr 2024, In: Fungal Ecology. 68, 101327.Research output: Contribution to journal › Article › peer-review
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Genetic Variability Among U.S.-Sentinel Cotton Plot Cotton Leafroll Dwarf Virus and Globally Available Reference Isolates Based on ORF0 Diversity
Adegbola, R. O., Ponvert, N. D. & Brown, J. K., Jun 2024, In: Plant disease. 108, 6, p. 1799-1811 13 p.Research output: Contribution to journal › Article › peer-review
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Genome resources for three modern cotton lines guide future breeding efforts
Sreedasyam, A., Lovell, J. T., Mamidi, S., Khanal, S., Jenkins, J. W., Plott, C., Bryan, K. B., Li, Z., Shu, S., Carlson, J., Goodstein, D., De Santiago, L., Kirkbride, R. C., Calleja, S., Campbell, T., Koebernick, J. C., Dever, J. K., Scheffler, J. A., Pauli, D. & Jenkins, J. N. & 13 others, , Jun 2024, In: Nature plants. 10, 6, p. 1039-1051 13 p.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
Genome-Wide Identification of Cotton MicroRNAs Predicted for Targeting Cotton Leaf Curl Kokhran Virus-Lucknow
Ashraf, M. A., Brown, J. K., Iqbal, M. S. & Yu, N., Mar 2024, In: Microbiology Research. 15, 1, p. 1-19 19 p.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
High-Quality Genome Assemblies Reveal Evolutionary Dynamics of Repetitive DNA and Structural Rearrangements in the Drosophila virilis Subgroup
Flynn, J. M., Ahmed-Braimah, Y. H., Long, M., Wing, R. A. & Clark, A. G., Jan 1 2024, In: Genome biology and evolution. 16, 1, evad238.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
Identification and Distribution of the ‘Candidatus Liberibacter asiaticus’-Asian Citrus Psyllid Pathosystem in Saudi Arabia
Ibrahim, Y. E., Al-Saleh, M. A., Widyawan, A., El Komy, M. H., Al Dhafer, H. M. & Brown, J. K., Apr 2024, In: Plant disease. 108, 4, p. 1083-1092 10 p.Research output: Contribution to journal › Article › peer-review
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Identifying critical microbes in guayule-microbe and microbe-microbe associations
Chen, Y., Dierig, D. A., Wang, G., Elshikha, D. E. M., Ray, D. T., Barberán, A., Maier, R. M. & Neilson, J. W., Jan 2024, In: Plant and Soil. 494, 1-2, p. 269-284 16 p.Research output: Contribution to journal › Article › peer-review
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IMG/PR: a database of plasmids from genomes and metagenomes with rich annotations and metadata
Camargo, A. P., Call, L., Roux, S., Nayfach, S., Huntemann, M., Palaniappan, K., Ratner, A., Chu, K., Mukherjeep, S., Reddy, T. B. K., Chen, I. M. A., Ivanova, N. N., Eloe-Fadrosh, E. A., Woyke, T., Baltrus, D. A., Castañeda-Barba, S., de la Cruz, F., Funnell, B. E., Hall, J. P. J. & Mukhopadhyay, A. & 4 others, , Jan 5 2024, In: Nucleic acids research. 52, D1, p. D164-D173Research output: Contribution to journal › Article › peer-review
Open Access7 Scopus citations -
Improved amplification of fecal DNA supports non-invasive microsatellite genotyping of lesser long-nosed bats (Leptonycteris yerbabuenae)
Walker, J. L. S., Steidl, R. J., Wolf, S. A., Lee, M. M. & Arnold, A. E., Mar 2024, In: Conservation Genetics Resources. 16, 1, p. 159-171 13 p.Research output: Contribution to journal › Article › peer-review
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Investigating the mechanism of chloroplast singlet oxygen signaling in the Arabidopsis thaliana accelerated cell death 2 mutant
Lemke, M. D., Abate, A. N. & Woodson, J. D., 2024, In: Plant Signaling and Behavior. 19, 1, 2347783.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
JAGGER localization and function are dependent on GPI anchor addition
Figueiredo, R., Costa, M., Moreira, D., Moreira, M., Noble, J., Pereira, L. G., Melo, P., Palanivelu, R., Coimbra, S. & Pereira, A. M., Sep 2024, In: Plant Reproduction. 37, 3, p. 341-353 13 p.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
Leaf cuticular wax composition of a genetically diverse collection of lettuce (Lactuca sativa L.) cultivars evaluated under field conditions
Luo, W., Gonzalez, E., Zarei, A., Calleja, S., Rozzi, B., Demieville, J., Li, H., Truco, M. J., Lavelle, D., Michelmore, R., Dyer, J. M., Jenks, M. A. & Pauli, D., Mar 15 2024, In: Heliyon. 10, 5, e27226.Research output: Contribution to journal › Article › peer-review
Open Access -
Luteibacter mycovicinus sp. nov., a yellow-pigmented gammaproteobacterium found as an endohyphal symbiont of endophytic Ascomycota
Baltrus, D. A., Carter, M., Clark, M., Smith, C., Spraker, J., Inderbitzin, P. & Elizabeth Arnold, A., May 1 2024, In: International Journal of Systematic and Evolutionary Microbiology. 74, 5, 006240.Research output: Contribution to journal › Article › peer-review
Open Access -
Mating system is associated with seed phenotypes upon loss of RNA-directed DNA methylation in Brassicaceae
Dew-Budd, K. J., Chow, H. T., Kendall, T., David, B. C., Rozelle, J. A., Mosher, R. A. & Beilstein, M. A., Apr 2024, In: Plant physiology. 194, 4, p. 2136-2148 13 p.Research output: Contribution to journal › Article › peer-review
Open Access4 Scopus citations -
Microbial transformation of argentatins by Cunninghamella elegans
Zhong, W., Xu, Y. M., Wijeratne, E. M. K., Inácio, M. C., Molnár, I. & Gunatilaka, A. A. L., 2024, In: Biocatalysis and Biotransformation. 42, 6, p. 817-825 9 p.Research output: Contribution to journal › Article › peer-review
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Molecular Surveillance, Prevalence, and Distribution of Cacao Infecting Badnavirus Species in Côte d’Ivoire and Ghana
Ameyaw, G. A., Kouakou, K., Iqbal, M. J., Belé, L., Wolf, V. L. F., Keith, C. V., Bi, B. A. B., Kouamé, C., Livingstone, D., Domfeh, O., Gyamera, E. A., Marelli, J. P. & Brown, J. K., May 2024, In: Viruses. 16, 5, 735.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
Monitoring cotton water status with microtensiometers
Christenson, C. G., Gohardoust, M. R., Calleja, S., Thorp, K. R., Tuller, M. & Pauli, D., Sep 2024, In: Irrigation Science. 42, 5, p. 995-1011 17 p.Research output: Contribution to journal › Article › peer-review
Open Access -
Multitrait engineering of Hassawi red rice for sustainable cultivation
Sedeek, K., Mohammed, N., Zhou, Y., Zuccolo, A., Sanikommu, K., Kantharajappa, S., Al-Bader, N., Tashkandi, M., Wing, R. A. & Mahfouz, M. M., Apr 2024, In: Plant Science. 341, 112018.Research output: Contribution to journal › Article › peer-review
Open Access -
NAKED ENDOSPERM1, NAKED ENDOSPERM2, and OPAQUE2 interact to regulate gene networks in maize endosperm development
Wu, H., Galli, M., Spears, C. J., Zhan, J., Liu, P., Yadegari, R., Dannenhoffer, J. M., Gallavotti, A. & Becraft, P. W., Jan 2024, In: Plant Cell. 36, 1, p. 19-39 21 p.Research output: Contribution to journal › Article › peer-review
Open Access5 Scopus citations -
Nectar robbers and simulated robbing differ in their effects on nectar microbial communities
Luizzi, V. J., Harrington, A. H., Bronstein, J. L. & Arnold, A. E., May 2024, In: Plant Species Biology. 39, 3, p. 126-137 12 p.Research output: Contribution to journal › Article › peer-review
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Optimal dsRNA Concentration for RNA Interference in Asian Citrus Psyllid
Saberi, E., Mondal, M., Paredes-Montero, J. R., Nawaz, K., Brown, J. K. & Qureshi, J. A., Jan 2024, In: Insects. 15, 1, 58.Research output: Contribution to journal › Article › peer-review
Open Access2 Scopus citations -
PlantSegNet: 3D point cloud instance segmentation of nearby plant organs with identical semantics
Zarei, A., Li, B., Schnable, J. C., Lyons, E., Pauli, D., Barnard, K. & Benes, B., Jun 2024, In: Computers and Electronics in Agriculture. 221, 108922.Research output: Contribution to journal › Article › peer-review
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Precipitation and time effects on vegetation change in Southern Arizona abandoned farmland
Karpiscak, M. M., Bean, T. M., Turner, R. M., Smith, S. E. & Halbrook, K., 2024, (Accepted/In press) In: Arid Land Research and Management.Research output: Contribution to journal › Article › peer-review
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Quantifying leaf symptoms of sorghum charcoal rot in images of field-grown plants using deep neural networks
Gonzalez, E. M., Zarei, A., Calleja, S., Christenson, C., Rozzi, B., Demieville, J., Hu, J., Eveland, A. L., Dilkes, B., Barnard, K., Lyons, E. & Pauli, D., Dec 2024, In: Plant Phenome Journal. 7, 1, e20110.Research output: Contribution to journal › Article › peer-review
Open Access -
Range-wide population decline of a foundational riparian species tree is linked to an endemic fungal pathogen in the western United States
Cowan, J., Hu, J., Haubensak, K. & Grady, K. C., Aug 2024, In: Biological Conservation. 296, 110704.Research output: Contribution to journal › Article › peer-review
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Regulation of a single inositol 1-phosphate synthase homeologue by HSFA6B contributes to fibre yield maintenance under drought conditions in upland cotton
Yu, L., Dittrich, A. C. N., Zhang, X., Brock, J. R., Thirumalaikumar, V. P., Melandri, G., Skirycz, A., Edger, P. P., Thorp, K. R., Hinze, L., Pauli, D. & Nelson, A. D. L., Oct 2024, In: Plant Biotechnology Journal. 22, 10, p. 2756-2772 17 p.Research output: Contribution to journal › Article › peer-review
Open Access -
The Root Endophytic Microbiome Shifts Under Drought in High-Performing Sorghum
Garcia, C., Pauli, D., Plecki, C., Alnasser, H., Rozzi, B., Calleja, S. & Arnold, A. E., 2024, In: Phytobiomes Journal. 8, 3, p. 282-296 15 p.Research output: Contribution to journal › Article › peer-review
Open Access -
The Structure of Spiroplasma Virus 4: Exploring the Capsid Diversity of the Microviridae
Mietzsch, M., Kailasan, S., Bennett, A., Chipman, P., Fane, B., Huiskonen, J. T., Clarke, I. N. & McKenna, R., Jul 2024, In: Viruses. 16, 7, 1103.Research output: Contribution to journal › Article › peer-review
Open Access -
UV-LASER adjuvant–surfactant-facilitated delivery of mobile dsRNA to tomato plant vasculature and evidence of biological activity by gene knockdown in the potato psyllid
Thakre, N., Carver, M., Paredes-Montero, J. R., Mondal, M., Hu, J., Saberi, E., Ponvert, N., Qureshi, J. A. & Brown, J. K., Apr 2024, In: Pest management science. 80, 4, p. 2141-2153 13 p.Research output: Contribution to journal › Article › peer-review
Open Access2 Scopus citations -
2023
A genetic screen for dominant chloroplast reactive oxygen species signaling mutants reveals life stage-specific singlet oxygen signaling networks
Lemke, M. D. & Woodson, J. D., 2023, In: Frontiers in Plant Science. 14, 1331346.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
A maize epimerase modulates cell wall synthesis and glycosylation during stomatal morphogenesis
Zhou, Y., Zhang, T., Wang, X., Wu, W., Xing, J., Li, Z., Qiao, X., Zhang, C., Wang, X., Wang, G., Li, W., Bai, S., Li, Z., Suo, Y., Wang, J., Niu, Y., Zhang, J., Lan, C., Hu, Z. & Li, B. & 6 others, , Dec 2023, In: Nature communications. 14, 1, 4384.Research output: Contribution to journal › Article › peer-review
Open Access5 Scopus citations -
A novel CLAVATA1 mutation causes multilocularity in Brassica rapa
Chow, H. T., Kendall, T. & Mosher, R. A., Jan 2023, In: Plant Direct. 7, 1, e476.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
A proximal sensing cart and custom cooling box for improved hyperspectral sensing in a desert environment
Thompson, A. L., Thorp, K. R., Conley, M. M. & Pauli, D., 2023, In: Frontiers in Agronomy. 5, 1195030.Research output: Contribution to journal › Article › peer-review
Open Access2 Scopus citations -
Assessment of guar gum production cost and environmental impact in the US Southwest
Antonanzas, J., Idowu, O. J., Ray, D. T., Angadi, S., Grover, K., Seavert, C., Summers, H. M. & Quinn, J. C., Nov 1 2023, In: Industrial Crops and Products. 203, 117116.Research output: Contribution to journal › Article › peer-review
Open Access1 Scopus citations -
Chemical control of rodents and its impact on rodent infestations during subsequent cropping season
Munawar, N., Mahmood, T. & Galbraith, D. W., 2023, In: International Journal of Pest Management. 69, 2, p. 140-149 10 p.Research output: Contribution to journal › Article › peer-review
3 Scopus citations