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Publications

Submissions from 2021

PDF Sociality sculpts similar patterns of molecular evolution in two independently evolved lineages of eusocial bees, Shell, Wyatt A., Steffen, Michael A., Pare, Hannah K., Seetharam, Arun S., Severin, Andrew J., Toth, Amy L., Rehan, Sandra M.

Submissions from 2020

PDF Comprehensive Analysis of Non Redundant Protein Database, Bagheri, Hamid, Dyer, Robert, Severin, Andrew J., Rajan, Hridesh
PDF CRISPR-Cas12a has widespread off-target and dsDNA-nicking effects, Murugan, Karthik, Seetharam, Arun S., Severin, Andrew J., Sashital, Dipali G.
PDF pyrpipe: a python package for RNA-Seq workflows, Singh, Urminder, Li, Jing, Seetharam, Arun, Wurtele, Eve Syrkin
PDF Transcriptome and Parasitome Analysis of Beet Cyst Nematode Heterodera schachtii, Elashry, Abdelnaser M., Habash, Samer S., Vijayapalani, Paramasivan, Brocke-Ahmadinejad, Nahal, Blümel, Roman, Seetharam, Arun, Schoof, Heiko, Grundler, Florian M. W.
PDF A genetic toolbox for metabolic engineering of Issatchenkia orientalis, Cao, Mingfeng, Fatma, Zia, Song, Xiaofei, Hsieh, Ping-Hung, Tran, Vinh G., Lyon, William L., Sayadi, Maryam, Shao, Zengyi, Yoshikuni, Yasuo, Zhao, Huimin

Submissions from 2019

PDF The Genome Sequence of Gossypioides kirkii Illustrates a Descending Dysploidy in Plants, Udall, Joshua A., Long, Evan, Ramaraj, Thiruvarangan, Conover, Justin L., Yuan, Daojun, Grover, Corrinne E., Gong, Lei, Arick, Mark A., II, Masonbrink, Rick E., Peterson, Daniel G., Wendel, Jonathan F.
PDF An Annotated Genome for Haliotis rufescens (Red Abalone) and Resequenced Green, Pink, Pinto, Black and White Abalone Species, Masonbrink, Rick E., Purcell, Catherine, Boles, Sara, Whitehead, Andrew, Hyde, John, Seetharam, Arun S., Severin, Andrew J.
PDF The genome of the soybean cyst nematode (Heterodera glycines) reveals complex patterns of duplications involved in the evolution of parasitism genes, Masonbrink, Rick E., Maier, Tom R., Muppirala, Usha, Seetharam, Arun S., Lord, Etienne, Juvale, Parijat S., Schmutz, Jeremy, Johnson, Nathan T., Korkin, Dmitry, Mitchum, Melissa G., Mimee, Benjamin, Eves-van den Akker, Sebastian, Hudson, Matthew, Severin, Andrew J., Baum, Thomas J.
PDF fagin: synteny-based phylostratigraphy and finer classification of young genes, Arendsee, Zebulun, Li, Jing, Singh, Urminder, Bhandary, Priyanka, Seetharam, Arun, Wurtele, Eve Syrkin

Submissions from 2018

PDF Response to Persistent ER Stress in Plants: a Multiphasic Process that Transitions Cells from Prosurvival Activities to Cell Death, Srivastava, Renu, Li, Zhaoxia, Russo, Giulia, Tang, Jie, Bi, Ran, Muppirala, Usha, Chudalayandi, Sivanandan, Severin, Andrew J., He, Mingze, Vaitkevicius, Samuel I., Lawrence-Dill, Carolyn J., Liu, Peng, Stapleton, Ann E., Bassham, Diane C., Brandizzi, Federica, Howell, Stephen H.
PDF Evidence for a unique DNA-dependent RNA polymerase in cereal crops, Trujillo, Joshua T., Seetharam, Arun S., Hufford, Matthew B., Beilstein, Mark A., Mosher, Rebecca A.
PDF Insights into teleost sex determination from the Seriola dorsalis genome assembly, Purcell, Catherine M., Seetharam, Arun S., Snodgrass, Owyn, Ortega-García, Sofia, Hyde, John R., Severin, Andrew J.
PDF Shared Data Science Infrastructure for Genomics Data, Bagheri, Hamid, Muppirala, Usha, Severin, Andrew J., Rajan, Hridesh

Submissions from 2017

PDF The In-Feed Antibiotic Carbadox Induces Phage Gene Transcription in the Swine Gut Microbiome, Johnson, Timothy A., Looft, Torey, Severin, Andrew J., Bayles, Darrell O., Nasko, Daniel J., Wommack, K. Eric, Howe, Adina, Allen, Heather K.
PDF Vascular Endothelial Growth Factor A and Leptin Expression Associated with Ectopic Proliferation and Retinal Dysplasia in Zebrafish Optic Pathway Tumors, Schultz, Laura E., Solin, Staci L., Wierson, Welsey A., Lovan, Janna M., Syrkin-Nikolau, Judith, Lincow, Deborah E., Severin, Andrew J., Sakaguchi, Donald S., McGrail, Maura
PDF Transcriptomic responses to environmental temperature by turtles with temperature-dependent and genotypic sex determination assessed by RNAseq inform the genetic architecture of embryonic gonadal development, Radhakrishnan, Srihari, Literman, Robert A., Neuwald, Jennifer L., Severin, Andrew, Valenzuela, Nicole
PDF Raising orphans from a metadata morass: a researcher's guide to re-use of public ’omics data, Bhandary, Priyanka, Seetharam, Arun S., Arendsee, Zebulun, Hur, Manhoi, Wurtele, Eve Syrkin
PDF Transcriptomic responses to environmental temperature by turtles with temperature-dependent and genotypic sex determination assessed by RNAseq inform the genetic architecture of embryonic gonadal development, Radhakrishnan, Shrihari, Literman, Robert, Neuwald, Jennifer, Severin, Andrew, Valenzuela, Nicole
PDF quaculture genomics, genetics and breeding in the United States: current status, challenges, and priorities for future research, The Aquaculture Genomics, Genetics and Breeding Workshop, Severin, Andrew J., et. al.

Submissions from 2016

PDF A Plasmodium‐like virulence effector of the soybean cyst nematode suppresses plant innate immunity, Noon, Jason B., Qi, Mingsheng, Sill, Danielle N., Muppirala, Usha, Eves-van den Akker, Sebastian, Maier, Thomas R., Dobbs, Drena, Mitchum, Melissa G., Hewezi, Tarek, Baum, Thomas J.
PDF Genome, transcriptome and methylome sequencing of a primitively eusocial wasp reveal a greatly reduced DNA methylation system in a social insect, Standage, Daniel S., Berens, Ali J., Glastad, Karl M., Severin, Andrew J., Brendel, Volker P., Toth, Amy L.
PDF A Study of Alterations in DNA Epigenetic Modifications (5mC and 5hmC) and Gene Expression Influenced by Simulated Microgravity in Human Lymphoblastoid Cells, Chowdhury, Basudev, Seetharam, Arun S., Wang, Zhiping, Liu, Yunlong, Lossie, Amy C., Thimmapuram, Jyothi, Irudayaraj, Joseph
PDF A motif-based method for predicting interfacial residues in both the RNA and protein components of protein-RNA complexes, Muppirala, Usha, Lewis, Benjamin A., Mann, Carla M., Dobbs, Drena L.

Submissions from 2015

PDF Transcriptome profiling of soybean (Glycine max) roots challenged with pathogenic and non-pathogenic isolates of Fusarium oxysporum, Lanubile, Alessandra, Muppirala, Usha K., Severin, Andrew J., Marocco, Adriano, Munkvold, Gary P.

View additional publications on the ISU Digital Repository