• 5212 Citations
  • 34 h-Index
1987 …2020

Research output per year

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Research Output

2020

Genome sequences of uncommon Shiga toxin-producing escherichia coli serotypes

Abdalhamid, B., McCutchen, E. L., Iwen, P. C., Gomes-Neto, J. C., Benson, A. K. & Hinrichs, S. H., Mar 5 2020, In : Microbiology Resource Announcements. 9, 10, e01496-19.

Research output: Contribution to journalArticle

Open Access

Sex bias in gut microbiome transmission in newly paired marmosets (Callithrix jacchus)

Zhu, L., Clayton, J. B., Suhr Van Haute, M. J., Yang, Q., Hassenstab, H. R., Mustoe, A. C., Knights, D., Benson, A. K. & French, J. A., Apr 2020, In : mSystems. 5, 2, e00910-19.

Research output: Contribution to journalArticle

Open Access
2019

Microbial community of saline, alkaline lakes in the Nebraska Sandhills based on 16S rRNA gene amplicon sequence data

Fiore, N. A., Dunigan, D. D., Shaffer, J. J., Roberts, R., Antony-Babu, S., Plantz, B. A., Nickerson, K. W., Benson, A. K. & Weberc, K. A., Mar 21 2019, In : Microbiology Resource Announcements. 8, 12, e00063-19.

Research output: Contribution to journalArticle

Open Access
2018

Commensal Escherichia coliStrains can promote intestinal inflammation via differential interleukin-6 production

Kittana, H., Gomes-Neto, J. C., Heck, K., Geis, A. L., Segura Muñoz, R. R., Cody, L. A., Schmaltz, R. J., Bindels, L. B., Sinha, R., Hostetter, J. M., Benson, A. K. & Ramer-Tait, A. E., Oct 9 2018, In : Frontiers in immunology. 9, OCT, 2318.

Research output: Contribution to journalArticle

4 Scopus citations

Experimental evaluation of the importance of colonization history in early-life gut microbiota assembly

Martínez, I., Maldonado-Gomez, M. X., Gomes-Neto, J. C., Kittana, H., Ding, H., Schmaltz, R., Joglekar, P., Cardona, R. J., Marsteller, N. L., Kembel, S. W., Benson, A. K., Peterson, D. A., Ramer-Tait, A. E. & Walter, J., Sep 2018, In : eLife. 7, e36521.

Research output: Contribution to journalArticle

29 Scopus citations

Shared mechanisms among probiotic taxa: implications for general probiotic claims

Sanders, M. E., Benson, A., Lebeer, S., Merenstein, D. J. & Klaenhammer, T. R., Feb 2018, In : Current Opinion in Biotechnology. 49, p. 207-216 10 p.

Research output: Contribution to journalReview article

49 Scopus citations
2017

A gut pathobiont synergizes with the microbiota to instigate inflammatory disease marked by immunoreactivity against other symbionts but not itself

Gomes-Neto, J. C., Kittana, H., Mantz, S., Segura Munoz, R. R., Schmaltz, R. J., Bindels, L. B., Clarke, J., Hostetter, J. M., Benson, A. K., Walter, J. & Ramer-Tait, A. E., Dec 1 2017, In : Scientific reports. 7, 1, 17707.

Research output: Contribution to journalArticle

11 Scopus citations

A real-time PCR assay for accurate quantification of the individual members of the Altered Schaedler Flora microbiota in gnotobiotic mice

Gomes-Neto, J. C., Mantz, S., Held, K., Sinha, R., Segura Munoz, R. R., Schmaltz, R., Benson, A. K., Walter, J. & Ramer-Tait, A. E., Apr 1 2017, In : Journal of Microbiological Methods. 135, p. 52-62 11 p.

Research output: Contribution to journalArticle

11 Scopus citations

Negative binomial mixed models for analyzing microbiome count data

Zhang, X., Mallick, H., Tang, Z., Zhang, L., Cui, X., Benson, A. K. & Yi, N., Jan 3 2017, In : BMC bioinformatics. 18, 1, 4.

Research output: Contribution to journalArticle

32 Scopus citations

The impact of the bovine faecal microbiome on Escherichia coli O157:H7 prevalence and enumeration in naturally infected cattle

Kim, M., Kuehn, L. A., Bono, J. L., Berry, E. D., Kalchayanand, N., Freetly, H. C., Benson, A. K. & Wells, J. E., Oct 2017, In : Journal of Applied Microbiology. 123, 4, p. 1027-1042 16 p.

Research output: Contribution to journalArticle

3 Scopus citations
2016

Molecular characterization of the intestinal microbiota in patients with and without abdominal bloating

Kulka, T. R., Benson, A. K., Carroll, I. M., Kim, J., Legge, R. M. & Ringel, Y., Mar 15 2016, In : American Journal of Physiology - Gastrointestinal and Liver Physiology. 310, 6, p. G417-G426

Research output: Contribution to journalArticle

14 Scopus citations

The gut microbiome - An emerging complex trait

Benson, A. K., Nov 1 2016, In : Nature Genetics. 48, 11, p. 1301-1302 2 p.

Research output: Contribution to journalReview article

19 Scopus citations
2015

Alignment behaviors of short peptides provide a roadmap for functional profiling of metagenomic data

Sinha, R., Clarke, J. & Benson, A. K., Dec 21 2015, In : BMC genomics. 16, 1, 1080.

Research output: Contribution to journalArticle

Host genetic architecture and the landscape of microbiome composition: Humans weigh in

Benson, A. K., Sep 22 2015, In : Genome biology. 16, 1, 203.

Research output: Contribution to journalArticle

10 Scopus citations
2014

Correction: Molecular evolution of glycoside hydrolase genes in the western corn rootworm (Diabrotica virgifera virgifera) (PLoS ONE (2014) 9, 4 (e94052) DOI: 10.1371/journal.pone.0094052)

Ffrench-constant, R., Valencia, A., Eyun, S. I., Wang, H., Pauchet, Y. & Benson, A. K., Jul 10 2014, In : PloS one. 9, 7, e102818.

Research output: Contribution to journalComment/debate

Host genetics and diet, but not immunoglobulin A expression, converge to shape compositional features of the gut microbiome in an advanced intercross population of mice

Leamy, L. J., Kelly, S. A., Nietfeldt, J., Legge, R. M., Ma, F., Hua, K., Sinha, R., Peterson, D. A., Walter, J., Benson, A. K. & Pomp, D., 2014, In : Genome biology. 15, 12, 1 p.

Research output: Contribution to journalArticle

Open Access
53 Scopus citations

Investigation of bacterial diversity in the feces of cattle fed different diets

Kim, M., Kim, J., Kuehn, L. A., Bono, J. L., Berry, E. D., Kalchayanand, N., Freetly, H. C., Benson, A. K. & Wells, J. E., 2014, In : Journal of animal science. 92, 2, p. 683-694 12 p.

Research output: Contribution to journalArticle

62 Scopus citations

Long term effect of gut microbiota transfer on diabetes development

Peng, J., Narasimhan, S., Marchesi, J. R., Benson, A., Wong, F. S. & Wen, L., 2014, In : Journal of Autoimmunity. 53, C, p. 85-94 10 p.

Research output: Contribution to journalArticle

77 Scopus citations

Meat science and muscle biology symposium: Escherichia coli o157:H7, diet, and fecal microbiome in beef cattle

Wells, J. E., Kim, M., Bono, J. L., Kuehn, L. A. & Benson, A. K., Apr 2014, In : Journal of animal science. 92, 4, p. 1345-1355 11 p.

Research output: Contribution to journalArticle

9 Scopus citations

Microbial successions are associated with changes in chemical profiles of a model refrigerated fresh pork sausage during an 80-day shelf life study

Benson, A. K., David, J. R. D., Gilbreth, S. E., Smith, G., Nietfeldt, J., Legge, R., Kim, J., Sinha, R., Duncan, C. E., Ma, J. & Singh, I., Sep 2014, In : Applied and environmental microbiology. 80, 17, p. 5178-5194 17 p.

Research output: Contribution to journalArticle

41 Scopus citations

Molecular evolution of glycoside hydrolase genes in the western corn rootworm (Diabrotica virgifera virgifera)

Eyun, S. I., Wang, H., Pauchet, Y., Ffrench-Constant, R. H., Benson, A. K., Valencia-Jiménez, A., Moriyama, E. N. & Siegfried, B. D., Apr 9 2014, In : PloS one. 9, 4, e94052.

Research output: Contribution to journalArticle

48 Scopus citations
2013

Molecular Characterization of Host-Specific Biofilm Formation in a Vertebrate Gut Symbiont

Frese, S. A., MacKenzie, D. A., Peterson, D. A., Schmaltz, R., Fangman, T., Zhou, Y., Zhang, C., Benson, A. K., Cody, L. A., Mulholland, F., Juge, N. & Walter, J., 2013, In : PLoS genetics. 9, 12, e1004057.

Research output: Contribution to journalArticle

60 Scopus citations
2012

Bacterial community structure of contrasting soils underlying Bornean rain forests: Inferences from microarray and next-generation sequencing methods

Russo, S. E., Legge, R., Weber, K. A., Brodie, E. L., Goldfarb, K. C., Benson, A. K. & Tan, S., Dec 2012, In : Soil Biology and Biochemistry. 55, p. 48-59 12 p.

Research output: Contribution to journalArticle

29 Scopus citations

Increased rectal microbial richness is associated with the presence of colorectal adenomas in humans

Sanapareddy, N., Legge, R. M., Jovov, B., McCoy, A., Burcal, L., Araujo-Perez, F., Randall, T. A., Galanko, J., Benson, A., Sandler, R. S., Rawls, J. F., Abdo, Z., Fodor, A. A. & Keku, T. O., Oct 2012, In : ISME Journal. 6, 10, p. 1858-1868 11 p.

Research output: Contribution to journalArticle

107 Scopus citations

Murine gut microbiota is defined by host genetics and modulates variation of metabolic traits

McKnite, A. M., Perez-Munoz, M. E., Lu, L., Williams, E. G., Brewer, S., Andreux, P. A., Bastiaansen, J. W. M., Wang, X., Kachman, S. D., Auwerx, J., Williams, R. W., Benson, A. K., Peterson, D. A. & Ciobanu, D. C., Jun 18 2012, In : PloS one. 7, 6, e39191.

Research output: Contribution to journalArticle

120 Scopus citations

Next-Generation Sequencing of Crown and Rhizome Transcriptome from an Upland, Tetraploid Switchgrass

Palmer, N. A., Saathoff, A. J., Kim, J., Benson, A., Tobias, C. M., Twigg, P., Vogel, K. P., Madhavan, S. & Sarath, G., Sep 2012, In : Bioenergy Research. 5, 3, p. 649-661 13 p.

Research output: Contribution to journalArticle

17 Scopus citations

Next-generation sequencing reveals significant bacterial diversity of botrytized wine

Bokulich, N. A., Joseph, C. M. L., Allen, G., Benson, A. K. & Mills, D. A., May 1 2012, In : PloS one. 7, 5, e36357.

Research output: Contribution to journalArticle

132 Scopus citations

The genome architecture of the collaborative cross mouse genetic reference population

Iraqi, F. A., Mahajne, M., Salaymah, Y., Sandovski, H., Tayem, H., Vered, K., Balmer, L., Hall, M., Manship, G., Morahan, G., Pettit, K., Scholten, J., Tweedie, K., Wallace, A., Weerasekera, L., Cleak, J., Durrant, C., Goodstadt, L., Mott, R., Yalcin, B. & 110 others, Aylor, D. L., Baric, R. S., Bell, T. A., Bendt, K. M., Brennan, J., Brooks, J. D., Buus, R. J., Crowley, J. J., Calaway, J. D., Calaway, M. E., Cholka, A., Darr, D. B., Didion, J. P., Dorman, A., Everett, E. T., Ferris, M. T., Mathes, W. F., Fu, C. P., Gooch, T. J., Goodson, S. G., Gralinski, L. E., Hansen, S. D., Heise, M. T., Hoel, J., Hua, K., Kapita, M. C., Lee, S., Lenarcic, A. B., Liu, E. Y., Liu, H., McMillan, L., Magnuson, T. R., Manly, K. F., Miller, D. R., O'Brien, D. A., Odet, F., Pakatci, I. K., Pan, W., de Villena, F. P. M., Perou, C. M., Pomp, D., Quackenbush, C. R., Robinson, N. N., Sharpless, N. E., Shaw, G. D., Spence, J. S., Sullivan, P. F., Sun, W., Tarantino, L. M., Valdar, W., Wang, J., Wang, W., Welsh, C. E., Whitmore, A., Wiltshire, T., Wright, F. A., Xie, Y., Yun, Z., Zhabotynsky, V., Zhang, Z., Zou, F., Powell, C., Steigerwalt, J., Threadgill, D. W., Chesler, E. J., Churchill, G. A., Gatti, D. M., Korstanje, R., Svenson, K. L., Collins, F. S., Crawford, N., Hunter, K., Samir, N., Kelada, P., Peck, B. C. E., Reilly, K., Tavarez, U., Bottomly, D., Hitzeman, R., Mcweeney, S. K., Frelinger, J., Krovi, H., Phillippi, J., Spritz, R. A., Aicher, L., Katze, M., Rosenzweig, E., Shusterman, A., Nashef, A., Weiss, E. I., Houri-Haddad, Y., Soller, M., Williams, R. W., Schughart, K., Yang, H., French, J. E., Benson, A. K., Kim, J., Legge, R., Low, S. J., Ma, F., Martinez, I., Walter, J., Broman, K. W., Hallgrimsson, B., Klein, O., Weinstock, G., Warren, W. C., Yang, Y. V. & Schwartz, D., Feb 2012, In : Genetics. 190, 2, p. 389-401 13 p.

Research output: Contribution to journalArticle

268 Scopus citations
2011

Dietary selenium affects host selenoproteome expression by influencing the gut microbiota

Kasaikina, M. V., Kravtsova, M. A., Lee, B. C., Seravalli, J., Peterson, D. A., Walter, J., Legge, R., Benson, A. K., Hatfield, D. L. & Gladyshev, V. N., Jul 2011, In : FASEB Journal. 25, 7, p. 2492-2499 8 p.

Research output: Contribution to journalArticle

72 Scopus citations

The evolution of host specialization in the vertebrate gut symbiont Lactobacillus reuteri

Frese, S. A., Benson, A. K., Tannock, G. W., Loach, D. M., Kim, J., Zhang, M., Oh, P. L., Heng, N. C. K., Patil, P. B., Juge, N., MacKenzie, D. A., Pearson, B. M., Lapidus, A., Dalin, E., Tice, H., Goltsman, E., Land, M., Hauser, L., Ivanova, N., Kyrpides, N. C. & 1 others, Walter, J., Feb 2011, In : PLoS genetics. 7, 2, e1001314.

Research output: Contribution to journalArticle

160 Scopus citations
2010

A grammar-based distance metric enables fast and accurate clustering of large sets of 16S sequences

Russell, D. J., Way, S. F., Benson, A. K. & Sayood, K., Dec 17 2010, In : BMC bioinformatics. 11, 601.

Research output: Contribution to journalArticle

29 Scopus citations

Diversification of the gut symbiont lactobacillus reuteri as a result of host-driven evolution

Oh, P. L., Benson, A. K., Peterson, D. A., Patil, P. B., Moriyama, E. N., Roos, S. & Walter, J., Mar 2010, In : ISME Journal. 4, 3, p. 377-387 11 p.

Research output: Contribution to journalArticle

152 Scopus citations

Individuality in gut microbiota composition is a complex polygenic trait shaped by multiple environmental and host genetic factors

Benson, A. K., Kelly, S. A., Legge, R., Ma, F., Low, S. J., Kim, J., Zhang, M., Oh, P. L., Nehrenberg, D., Hua, K., Kachman, S. D., Moriyama, E. N., Walter, J., Peterson, D. A. & Pomp, D., Nov 2 2010, In : Proceedings of the National Academy of Sciences of the United States of America. 107, 44, p. 18933-18938 6 p.

Research output: Contribution to journalArticle

672 Scopus citations
2009

Diet-induced metabolic improvements in a hamster model of hypercholesterolemia are strongly linked to alterations of the gut microbiota

Martínez, I., Wallace, G., Zhang, C., Legge, R., Benson, A. K., Carr, T. P., Moriyama, E. N. & Walter, J., Jun 2009, In : Applied and environmental microbiology. 75, 12, p. 4175-4184 10 p.

Research output: Contribution to journalArticle

193 Scopus citations

Genomic instability in regions adjacent to a highly conserved pch prophage in Escherichia coli O157:H7 generates diversity in expression patterns of the LEE pathogenicity island

Yang, Z., Kim, J., Zhang, C., Zhang, M., Nietfeldt, J., Southward, C. M., Surette, M. G., Kachman, S. D. & Benson, A. K., Jun 2009, In : Journal of bacteriology. 191, 11, p. 3553-3568 16 p.

Research output: Contribution to journalArticle

18 Scopus citations

Genomic regions conserved in lineage II Escherichia coli O157:H7 strains

Steele, M., Ziebell, K., Zhang, Y., Benson, A., Johnson, R., Laing, C., Taboada, E. & Gannon, V., May 2009, In : Applied and environmental microbiology. 75, 10, p. 3271-3280 10 p.

Research output: Contribution to journalArticle

10 Scopus citations
2008

Genotypic characterization and prevalence of virulence factors among Canadian Escherichia coli O157:H7 strains

Ziebell, K., Steele, M., Zhang, Y., Benson, A., Taboada, E. N., Laing, C., McEwen, S., Ciebin, B., Johnson, R. & Gannon, V., Jul 2008, In : Applied and environmental microbiology. 74, 14, p. 4314-4323 10 p.

Research output: Contribution to journalArticle

40 Scopus citations

Molecular and Population Genetics of Virulence Traits in Escherichia Coli O157: H7

Benson, A., Feb 25 2008, Microbial Food Safety in Animal Agriculture: Current Topics. Blackwell Publishing, p. 155-166 12 p.

Research output: Chapter in Book/Report/Conference proceedingChapter

1 Scopus citations
2007

Genome evolution in major Escherichia coli O157:H7 lineages

Zhang, Y., Laing, C., Steele, M., Ziebell, K., Johnson, R., Benson, A. K., Taboada, E. & Gannon, V. P. J., May 16 2007, In : BMC genomics. 8, 121.

Research output: Contribution to journalArticle

110 Scopus citations

Genomic deletion marking an emerging subclone of Francisella tularensis subsp. holarctica in France and the Iberian Peninsula

Dempsey, M. P., Dobson, M., Zhang, C., Zhang, M., Lion, C., Gutiérrez-Martín, C. B., Iwen, P. C., Fey, P. D., Olson, M. E., Niemeyer, D., Francesconi, S., Crawford, R., Stanley, M., Rhodes, J., Wagner, D. M., Vogler, A. J., Birdsell, D., Keim, P., Johansson, A., Hinrichs, S. H. & 1 others, Benson, A. K., Nov 2007, In : Applied and environmental microbiology. 73, 22, p. 7465-7470 6 p.

Research output: Contribution to journalArticle

30 Scopus citations

Identification of Escherichia coli O157:H7 genomic regions conserved in strains with a genotype associated with human infection

Steele, M., Ziebell, K., Zhang, Y., Benson, A., Konczy, P., Johnson, R. & Gannon, V., Jan 2007, In : Applied and environmental microbiology. 73, 1, p. 22-31 10 p.

Research output: Contribution to journalArticle

25 Scopus citations
2006

Comparative genomics of the lactic acid bacteria

Makarova, K., Slesarev, A., Wolf, Y., Sorokin, A., Mirkin, B., Koonin, E., Pavlov, A., Pavlova, N., Karamychev, V., Polouchine, M., Shakhova, V., Grigoriev, I., Lou, Y., Rohksar, D., Lucas, S., Huang, K., Goodstein, D. M., Hawkins, T., Plengvidhya, V., Welker, D. & 30 others, Hughes, J., Goh, Y., Benson, A., Baldwin, K., Lee, J. H., Díaz-Muñiz, I., Dosti, B., Smeianov, V., Wechter, W., Barabote, R., Lorca, G., Altermann, E., Barrangou, R., Ganesan, B., Xie, Y., Rawsthorne, H., Tamir, D., Parker, C., Breidt, F., Broadbent, J., Hutkins, R., O'Sullivan, D., Steele, J., Unlu, G., Saier, M., Klaenhammer, T., Richardson, P., Kozyavkin, S., Weimer, B. & Mills, D., Oct 17 2006, In : Proceedings of the National Academy of Sciences of the United States of America. 103, 42, p. 15611-15616 6 p.

Research output: Contribution to journalArticle

886 Scopus citations

Identification of a putative operon involved in fructooligosaccharide utilization by Lactobacillus paracasei

Goh, Y. J., Zhang, C., Benson, A. K., Schlegel, V., Lee, J. H. & Hutkins, R. W., Dec 2006, In : Applied and environmental microbiology. 72, 12, p. 7518-7530 13 p.

Research output: Contribution to journalArticle

55 Scopus citations
27 Scopus citations
2005

Functional consequences of genome evolution in Listeria monocytogenes: The lmo0423 and lmo0422 genes encode σC and LstR, a lineage II-specific heat shock system

Zhang, C., Nietfeldt, J., Zhang, M. & Benson, A. K., Nov 2005, In : Journal of bacteriology. 187, 21, p. 7243-7253 11 p.

Research output: Contribution to journalArticle

36 Scopus citations
2004

Catabolite repression and virulence gene expression in Listeria monocytogenes

Gilbreth, S. E., Benson, A. K. & Hutkins, R. W., Aug 2004, In : Current Microbiology. 49, 2, p. 95-98 4 p.

Research output: Contribution to journalArticle

27 Scopus citations

DNA sequence analysis of regions surrounding blaCMY-2 from multiple Salmonella plasmid backbones

Giles, W. P., Benson, A. K., Olson, M. E., Hutkins, R. W., Whichard, J. M., Winokur, P. L. & Fey, P. D., Aug 2004, In : Antimicrobial Agents and Chemotherapy. 48, 8, p. 2845-2852 8 p.

Research output: Contribution to journalArticle

79 Scopus citations

Genome diversity among regional populations of Francisella tularensis subspecies tularensis and Francisella tularensis subspecies holarctica isolated from the US

Samrakandi, M. M., Zhang, C., Zhang, M., Nietfeldt, J., Kim, J., Iwen, P. C., Olson, M. E., Fey, P. D., Duhamel, G. E., Hinrichs, S. H., Cirillo, J. D. & Benson, A. K., Aug 1 2004, In : FEMS Microbiology Letters. 237, 1, p. 9-17 9 p.

Research output: Contribution to journalArticle

23 Scopus citations

Identification of common subpopulations of non-sorbitol-fermenting, β-glucuronidase-negative Escherichia coli O157:H7 from bovine production environments and human clinical samples

Yang, Z., Kovar, J., Kim, J., Nietfeldt, J., Smith, D. R., Moxley, R. A., Olson, M. E., Fey, P. D. & Benson, A. K., Nov 2004, In : Applied and environmental microbiology. 70, 11, p. 6846-6854 9 p.

Research output: Contribution to journalArticle

93 Scopus citations

Influence of animal origin and lineage on survival of Escherichia coli O157:H7 strains in strong and weak acid challenges

Saridakis, C. E., Johnson, R. P., Benson, A., Ziebell, K. & Gyles, C. L., Aug 2004, In : Journal of food protection. 67, 8, p. 1591-1596 6 p.

Research output: Contribution to journalArticle

11 Scopus citations