Magdy S. Alabady, PhD, MSc

Faculty, Scientist, and Director



Department of Plant Biology

University of Georgia Athens

Address 1:
Department of Plant Biology
2502 Miller Plant Sciences
University of Georgia
Athens, GA 30602

Address 2:
Georgia Genomics and Bioinformatics Lab
110 Riverbend Rd., Room 161
Athens, GA 30602



Publications


Representative publications


The species coalescent indicates possible bat and pangolin origins of the COVID-19 pandemic


Jialin Yang, Michael Skaro, Jiani Chen, Duna Zhan, Leke Lyu, Skylar Gay, Ahmed Kandeil, Mohamed A Ali, Ghazi Kayali, Kateryna Stoianova, Pensheng Ji, Magdy Alabady, Justin Bahl, Liang Liu, Jonathan Arnold

Scientific Reports, vol. 13(1), 2023, p. 5571


Genome report: Whole genome sequence and annotation of Penstemon davidsonii


Kate L. Ostevik, Magdy Alabady, Mengrui Zhang, Mark D. Rausher

BioRxiv, 2023, September 3


Genome and evolution of Prosopis alba Griseb., a drought and salinity tolerant tree legume crop for arid climates


Wenqian Kong, Min Liu, P. Felker, M. Ewens, C. Bessega, C. Pometti, Jinpeng Wang, Peng Xu, J. Teng, Jinyu Wang, Xiyin Wang, Yuannian Jiao, Magdy S. Alabady, F. Thibaud-Nissen, P. Masterson, Xin Qiao, A. Paterson

Plants, People, Planet, 2023


Diet composition and diversity does not explain fewer, smaller urban nestlings


E. Grabarczyk, S. Gill, M. Vonhof, Magdy S. Alabady, Zeng-Hui Wang, Jason M. Schmidt

PloS one, 2022


Analysis of genes associated with proinflammatory and profibrotic pathways upregulated in ischemia-induced chronic kidney disease in cats.


B. N. Lourenço, C. Schmiedt, Magdy S. Alabady, J. Stanton, A. Coleman, C. Brown, D. Rissi, Scott A. Brown, J. Tarigo

American journal of veterinary research, 2021


Characterizing changes in soil microbiome abundance and diversity due to different cover crop techniques


Charlotte Wang, Linda Wu, Zeng-Hui Wang, Magdy S. Alabady, Daniel Parson, Zainab Molumo, Sarah C. Fankhauser

PLoS ONE, 2020


Gapless assembly of maize chromosomes using long-read technologies


Jianing Liu, Arun S. Seetharam, K. Chougule, Shujun Ou, Kyle W. Swentowsky, J. Gent, V. Llaca, M. Woodhouse, N. Manchanda, G. Presting, D. Kudrna, Magdy S. Alabady, C. Hirsch, K. Fengler, D. Ware, T. Michael, M. Hufford, R. Dawe

Genome Biology, 2020


Adapterama I : Universal stubs and primers for 384 1 unique dual-indexed or 147 , 456 combinatorially-2 indexed Illumina libraries ( iTru & iNext ) 3 4


T. Glenn, R. Nilsen, Troy J. Kieran, J. Sanders, -. NataliaJ.Bayona, Vásquez, J. W. Finger, Todd W. Pierson, K. Bentley, Sandra L. Hoffberg, Swarnali Louha, Francisco J. García-De León, M. A. Río-Portilla, K. Reed, Jennifer L. Anderson, J. Meece, S. Aggrey, R. Rekaya, Magdy S. Alabady, Myriam Bélanger, K. Winker, B. Faircloth

2019


Adapterama I: universal stubs and primers for 384 unique dual-indexed or 147,456 combinatorially-indexed Illumina libraries (iTru & iNext)


T. Glenn, R. Nilsen, Troy J. Kieran, J. Sanders, N. Bayona‐Vásquez, J. W. Finger, Todd W. Pierson, K. Bentley, Sandra L. Hoffberg, S. Louha, F. J. García-De León, M. A. del Rio Portilla, K. Reed, Jennifer L. Anderson, J. Meece, S. Aggrey, R. Rekaya, Magdy S. Alabady, Myriam Bélanger, K. Winker, B. Faircloth

PeerJ, 2019


A Kinesin-14 Motor Activates Neocentromeres to Promote Meiotic Drive in Maize


R. Dawe, E. G. Lowry, J. Gent, Michelle C. Stitzer, Kyle W. Swentowsky, David M. Higgins, J. Ross-Ibarra, J. Wallace, L. Kanizay, Magdy S. Alabady, Weihong Qiu, Kuo-fu Tseng, Na Wang, Zhi Gao, J. Birchler, A. Harkess, Amy L. Hodges, E. N. Hiatt

Cell, 2018


A carnivorous plant genetic map: pitcher/insect-capture QTL on a genetic linkage map of Sarracenia


R. Malmberg, W. L. Rogers, Magdy S. Alabady

Life Science Alliance, 2018


Abundance and Multilocus Sequence Analysis of Vibrio Bacteria Associated with Diseased Elkhorn Coral (Acropora palmata) of the Florida Keys


Keri M Kemp, Jason R. Westrich, Magdy S. Alabady, Martin L. Edwards, E. Lipp

Applied and Environmental Microbiology, 2017


Widespread natural variation of DNA methylation within angiosperms


Chad E. Niederhuth, Adam J. Bewick, L. Ji, Magdy S. Alabady, K. Kim, Qing Li, Nicholas A. Rohr, Aditi Rambani, J. Burke, J. Udall, C. Egesi, J. Schmutz, J. Grimwood, S. Jackson, N. Springer, R. Schmitz

bioRxiv, 2016


Histone H3 Variant Regulates RNA Polymerase II Transcription Termination and Dual Strand Transcription of siRNA Loci in Trypanosoma brucei


D. Reynolds, Brigitte T. Hofmeister, L. Cliffe, Magdy S. Alabady, T. Siegel, R. Schmitz, R. Sabatini

PLoS Genetics, 2016


Adapterama I: Universal Stubs and Primers for Thousands of Dual-Indexed Illumina Libraries (iTru & iNext)


T. Glenn, R. Nilsen, Troy J. Kieran, J. W. Finger, Todd W. Pierson, K. Bentley, Sandra L. Hoffberg, S. Louha, F. J. García-De León, Miguel Angel del Rio Portilla, K. Reed, Jennifer L. Anderson, J. Meece, Samuel E. Aggery, R. Rekaya, Magdy S. Alabady, Myriam Bélanger, K. Winker, B. Faircloth

bioRxiv, 2016


Universal stubs and primers for thousands of dual-indexed Illumina libraries 1 ( iTru & iNext ) 2 3


T. Glenn, R. Nilsen, Troy J. Kieran, J. W. Finger, Todd W. Pierson, K. Bentley, Sandra L. Hoffberg, S. Louha, F. J. G. León, A. Portilla, K. Reed, Jennifer L. Anderson, J. Meece, E. Samuel, Aggrey, R. Rekaya, Magdy S. Alabady, Myriam Bélanger, K. Winker, B. Faircloth

2016


Exploiting genome variation to improve next-generation sequencing data analysis and genome editing efficiency in Populus tremula × alba 717-1B4


Liang-Jiao Xue, Magdy S. Alabady, Mohammad Mohebbi, Chung-Jui Tsai

Tree Genetics & Genomes, 2015


A detailed gene expression study of the Miscanthus genus reveals changes in the transcriptome associated with the rejuvenation of spring rhizomes


A. Barling, K. Swaminathan, T. Mitros, Brandon T James, J. Morris, Ornella Ngamboma, M. Hall, J. Kirkpatrick, Magdy S. Alabady, Ashley K. Spence, M. Hudson, D. Rokhsar, S. Moose

BMC Genomics, 2013


A detailed gene expression study of the Miscanthusgenus reveals changes in the transcriptome associated with the rejuvenation of spring rhizomes


Adam R. Barling, Kankshita Swaminathan, T. Mitros, Brandon T James, Juliette Morris, Ornella Ngamboma, M. Hall, J. Kirkpatrick, Magdy S. Alabady, Ashley K. Spence, M. Hudson, D. Rokhsar, S. Moose

BMC Genomics, 2013


Effects of the probiotic Lactobacillus animalis in murine Mycobacterium avium subspecies paratuberculosis infection


E. Karunasena, Paresh C Kurkure, Russell Lackey, K. McMahon, Estevan P Kiernan, S. Graham, Magdy S. Alabady, David L. Campos, O. L. Tatum, M. Brashears

BMC Microbiology, 2013


Serum albumin alters the expression of iron-controlled genes in Pseudomonas aeruginosa.


C. Kruczek, M. Wachtel, Magdy S. Alabady, P. Payton, J. Colmer-Hamood, A. Hamood

Microbiology, 2012


Genomic and small RNA sequencing of Miscanthus × giganteus shows the utility of sorghum as a reference genome sequence for Andropogoneae grasses


K. Swaminathan, Magdy S. Alabady, Kranthi Varala, E. De Paoli, Isaac Y. Ho, D. Rokhsar, A. Arumuganathan, R. Ming, P. Green, B. Meyers, S. Moose, M. Hudson

Genome Biology, 2010


Double feature selection and cluster analyses in mining of microarray data from cotton


Magdy S. Alabady, Eunseog Youn, T. Wilkins

BMC Genomics, 2008


Gene-rich islands for fiber development in the cotton genome.


Zhanyou Xu, R. Kohel, G. Song, Jaemin Cho, Magdy S. Alabady, Jing Yu, Pamela K. Koo, J. Chu, Shuxun Yu, T. Wilkins, Yuxian Zhu, John Z. Yu

Genomics, 2008


Genetic mapping of new cotton fiber loci using EST-derived microsatellites in an interspecific recombinant inbred line cotton population


Younghoon Park, Magdy S. Alabady, M. Ulloa, Brad Sickler, T. Wilkins, John Z. Yu, D. Stelly, R. Kohel, O. El-Shihy, R. Cantrell

Zeitschrift für Induktive Abstammungs- und Vererbungslehre, 2005




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