Current Students

Education:  B.S. Biomedical Studies – Rochester Institute of Technology (2022)

Rotations:  Zhang R, Bart, Stallings

Thesis:  TBD

Publications:

Parthasarathy A, Miranda RR, Bedore TJ, Watts LM, Mantravadi PK, Wong NH, Chu J, Adjei JA, Rana AP, Savka MA, Bulman ZP, Borrego EJ, Hudson AO (2024) Interaction of Acinetobacter sp. RIT 592 induces the production of broad-spectrum antibiotics in Exiguobacterium sp. RIT 594.  Front Pharmacol 15, 1456027

Sankoh AF, Adjei J, Roberts D, Burch-Smith TM (2024) Comparing methods for detection and quantification of plasmodesmal callose in Nicotiana benthamiana leaves during defense responses.  Mol Plant Microbe Interact  37, 427-31

Raisman JC, Fiore MA, Tomin L, Adjei JKO, Aswad VX, Chu J, Domondon CJ, Donahue BA, Masciotti CA, McGrath CG, Melita J, Podbielski PA, Schreiner MR, Trumpore LJ, Wengert PC, Wrightstone EA, Hudson AO, Wadsworth CB (2022) Evolutionary paths to macrolide resistance in a Neisseria commensal converge on ribosomal genes through short sequence duplications. PLoS One  2022 17, :e0262370

Cavanaugh NT, Parthasarathy A, Wong NH, Steiner KK, Chu J, Adjei J, Hudson AO (2021) Exiguobacterium sp. is endowed with antibiotic properties against Gram positive and negative bacteria.  BMC Res Notes 14, 230

Education:  B.S. Biology, Missouri Baptist U. (2018)

Rotations:  Bart, Haswell, Olsen, & Penczykowski labs

Thesis:  TBD

Publications:

Ha CV, Mostofa MG, Nguyen KH, Tran CD, Watanabe Y, Li W, Osakabe Y, Sato M, Toyooka K, Tanaka M, Seki M, Burritt DJ, Anderson CM, Zhang R, Nguyen HM, Le VP, Bui HT, Mochida K, Tran LP (2022) The histidine phosphotransfer AHP4 plays a negative role in Arabidopsis plant response to drought.  Plant J 111, 1732-52

Zhang N, Mattoon EM, McHargue W, Venn B, Zimmer D, Pecani K, Jeong J, Anderson CM, Chen C, Berry JC, Xia M, Tzeng SC, Becker E, Pazouki L, Evans B, Cross F, Cheng J, Czymmek KJ, Schroda M, Muehlhaus T, Zhang R (2022) Systems-wide analysis revealed shared and unique responses to moderate and acute high temperatures in the green alga Chlamydomonas reinhardtii.  Commun Biol 5, 460

Anderson CM, Mattoon EM, Zhang N, Becker E, McHargue W, Yang J, Patel D, Dautermann O, McAdam SAM, Tarin T, Pathak S, Avenson TJ, Berry J, Braud M, Niyogi KK, Wilson M, Nusinow DA, Vargas R, Czymmek KJ, Eveland AL, Zhang R (2021) High light and temperature reduce photosynthetic efficiency through different mechanisms in the C4 model Setaria viridis.  Commun Biol 4, 1092

Education:  B.S. Biochemistry, Clemson U. (2021)

Rotations:  Dixit, Bart, Jez, & Nusinow labs

Thesis:  Investigating the molecular mechanisms underlying arbuscular mycorrhizal fungal colonization of Medicago truncatula

Publications:

Zhao G, Liu Y, Li L, Che R, Douglass M, Benza K, Angove M, Luo K, Hu Q, Chen X, Henry C, Li Z, Ning G, Luo H (2024) Gene pyramiding for boosted plant growth and broad abiotic stress tolerance.  Plant Biotechnol J 22, 678-97

Education:  B.S. Biology – Microbiology, Southeast Missouri State U. (2020)

Rotations:  Bose, Vindigni, & Pakrasi Labs

Thesis: Genetic and metabolomic analysis of the nutrient stress response cytoplasmic condensation in E. coli

Activities:  Treasurer, WU Promoting Science Policy, Education, and Research (ProSPER); PMB Steering Committee Student Representative

Publication:

Brauer AM, Shi H, Levin PA, Huang KC (2023) Physiological and regulatory convergence between osmotic and nutrient stress responses in microbes.  Curr Opin Cell Biol 81, 102170

Brauer AM, Rogers AR, Ellermeier JR (2021) Twin-arginine translocation (Tat) mutants in Salmonella enterica derivar Typimurium have increased susceptibility to cell wall targeting antibiotics.  FEMS Microbes 2, xtab004

Education:  B.S. , Earth, Natural Resources, & Plant Sciences, Tuskegee U. (2013); M.S. Genetics, Iowa State U. (2015)

Rotation:  Topp, Baxter, & Olsen labs

Thesis:  Root Ideotypes For Urban and Low Input Agricultural Systems

Publication:

Brazelton VA, Zarecor S, Wright DA, Wang Y, Liu J, Chen K, Yang B, Lawrence-Dill CJ (2015) A quick guide to CRISPR sgRNA design tools. GM Crops Food 6, 266-76

Education:  B.S. Microbiology, U South Florida (2018)

Rotations:  Levin, Kutluay, & Dixit labs

Thesis: Immunofluorescent microscopy of FtsZ C-Terminal Linker Varients in Bacillus subtilis

Publication:

Shinn MK, Cohan MC, Bullock JL, Ruff KM, Levin PA, Pappu RV (2022) Connecting sequence features within the disordered C-terminal linker of Bacillus subtilis FtsZ to functions and bacterial cell division.  Proc Natl Acad Sci USA 119, e2211178119

Zhu D, Bullock J, He Y, Sun X (2019) Cwp22, a novel peptidoglycan cross-linking enzyme, plays pleiotropic roles in Clostridioles difficile.  Environ Micro 21, 3076-90

Education:  B.S. Life Science, Ewha Womans U (2013); M.S. Life Science, Sogang U (2016)

Rotations:  Baxter, Topp, & Pakrasi labs

Thesis:  TBD

Publications:

Cho S*, Yu SI*, Park J, Mao Y, Zhu JK, Yun DJ, Lee BH (2017) Accession-dependent CBF gene deletion by CRISPR/Cas system in Arabidopsis.  Front Plant Sci 8, 1910 (*equal contribution)

Education:  B.S. Biology, Allegheny College (2016)

Rotations:  Bose, Bradley, & Umen Labs

Thesis:  Investigating the biogeochemistry of photosynthetic extracellular electron uptake in the genus Rhodomicrobium

Activities:  PMB Steering Committee Student Representative; Young Scientist Program (YSP); Biotechnology and Life Sciences Advising Group (BALSA); InPrint

Publications:

Ranaivoarisoa TO, Bai W, Karthikeyan R, Steele H, Silberman M, Olabode J, Conners E, Gallagher B, Bose A (2024) Overexpression of RuBisCO form I and II genes in Rhodopseudomonas palustris TIE-1 augments polyhydroxyalkanoate production heterotrophically and autotrophically.  Appl Environ Microbiol 90, e0143824

Conners EM, Rengasamy K, Ranaivoarisoa T, Bose A (2024) The phototrophic purple non-sulfur bacteria Rhodomicrobium spp. are novel chassis for bioplastic production. Microb Biotechnol 17, e14552

Conners EM, Rengasamy K, Bose A (2022) Electroactive biofilms: how microbial electron transfer enables bioelectrochemical applications.  J Ind Microbiol Biotechnol 49, kuac012

Conners EM, Davenport EJ, Bose A (2021) Revised draft genome sequences of Rhodomicrobium vannielii ATCC 17100 and Rhodomicrobium udaipurense JA643.  Microbiol Resour Announc 10, e00022-21

Yeh A, Conners EM, Ramos-Jimenez RG, Firek B, Novak EA, Rogers MB, Cheek R, Ozolek J, Mollen KP, Morowitz MJ (2019) Plant-based enteral nutrition modified the gut microbiota and improves outcomes in murine models of colitis.  Cell Mol Gastroenterol Hepatol 7, 872-4

Education:  B.S. Biology – Ball State U (2023)

Rotations:  Zhong, Nusinow, and Mansfeld labs

Thesis:  Investigating NLR diversity and effector responses in wild apple varieties

Education:  B.S. Biological Sciences, Bowling Green State U. (2014), M.S. Biological Sciences, Bowling Green State U. (2016)

Rotations:  Ru Zhang, Bose, & Odom-John Labs

Thesis:  TBD

Publications:

Davenport EJ, Bose A (2022) Taxonomic re-evaluation and genomic comparison of novel extracellular electron uptake-capable Rhodovulum visakhapatnamense and Rhodovulum sulfidophilum isolates.  Microorganisms 10, 1235

Gupta D, Guzman MS, Rengasamy K, Stoica A, Singh R, Ranaivoarisoa TO, Davenport EJ, Bai W, McGinley B, Meacham JM, Bose A (2021) Photoferrotrophy and phototrophic extracellular electron uptake is common in the marine anoxygenic phototroph Rhodovulum sulfidophilum. ISME J 15, 3384-98

Conners EM, Davenport EJ, Bose A (2021) Revised draft genome sequences of Rhodomicrobium vannielii ATCC 17100 and Rhodomicrobium udaipurense JA643.  Microbiol Resour Announc 10, e00022-21

Davenport EJ, Neudeck MJ, Matson PG, Bullerjahn GS, Davis TW, Wilhelm SW, Denney MK, Krausfeldt LE, Stough JMA, Meyer KA, Dick GH, Johengen TH, Lindquist E, Tringe SG, McKay RML (2019) Metatranscriptomic analyses of diel metabolic functions during a microcystis bloom in western Lake Erie (United States).  Front Microbiol 10, 2081

Education:  B.A. Molecular Biology,  Kenyon College (2020)

Rotations:  Haswell, Dixit, Pandey, & Nusinow Labs

Thesis:  Investigating the circadian regulation of triacylglycerol biosynthesis in Arabidopsis thaliana

Activities:  Genetics and Genomics Teaching Team Leader for YSP; Next-Up Course Coordinator for YSP

Publications:

Battle MW, Ewing SF, Dickson C, Obaje J, Edgeworth KN, Bindbeutel R, Antoniou-Kourounioti RL, Nusinow DA, Jones MA (2024) Manipulation of photosensory and circadian signaling restricts phenotypic plasticity in response to changing environmental conditions in Arabidopsis.  Mol Plant 17, 1458-71

Kim SC, Edgeworth KN, Nusinow DA, Wang X (2023) Circadian clock factors regulate the first condensation reaction of fatty acid synthesis in Arabidopsis.  Cell Rep 42, 113483

Sorkin ML, Markham KK, Zorich S, Menon A, Edgeworth KN, Ricono A, Bryant D, Bart R, Nusinow DA, Greenham K (2023) Assembly and operation of an imaging system for long-term monitoring of bioluminescent and fluorescent reporters in plants.  Plant Methods 19, 19

Hines KM, Chaudhari V, Edgeworth KN, Owens TG, Hanson MR (2021) Absence of carbonic anhydrase in chloroplasts affects C3 plant development but not photosynthesis.  Proc Natl Acad Sci USA 118, e2017425119

Education:  B.S. Agriculture, Annamalai University (2021); M.S. Plant Physiology,  Indian Agricultural Research Institute (2023)

Rotations:  TBD

Thesis:  TBD

Education:  B.S. Biology, Truman State U (2017)

Rotations:  Dixit, Vahey, Kutluay, & Zaher labs

Thesis:  TBD

Publications:

Puray-Chavez M, Eschbach JE, Xia M, LaPak KM, Zhou Q, Jasuja R, Pan J, Xu J, Zhou Z, Mohammed S, Wang Q, Lawson DQ, Djokic S, Hou G, Ding S, Brody SL, Major MB, Goldfarb D, Kutluay SB (2024) A basally active cGAS-STING pathway limits SARS-CoV-2 replication in a subset of ACE2 positive airway cell models.  Nature Commun 15, 8394

Eschbach JE, Puray-Chavez M, Mohammed S, Wang Q, Xia M, Huang L-C, Shan L, Kutluay SB (2024) HIV-1 capsid stability and reverse transcription are finely balanced to minimize sensing of reverse transcription products via the cGAS-STING pathway.  mBio 15, e0034824

Shema Mugisha C, Dinh T, Kumar A, Tenneti K, Eschbach JE, Davis K, Gifford R, Kvaratskhelia M, Kutluay SB (2022) Emergence of compensatory mutations reveals the importance of electrostatic interactions between HIV-1 integrase and genomic RNA.  mBio 13, e0043122

Puray-Chavez M, LaPak KM, Schrank TP, Elliott JL, Bhatt DP, Agajanian MJ, Jasuja R, Lawson DQ, Davis K, Rothlauf PW, Liu Z, Jo H, Lee N, Tenneti K, Eschbach JE, Shema Mugisha C, Cousins EM, Cloer EW, Vuong HR, VanBlargan LA, Bailey AL, Gilchuk P, Crowe JE Jr, Diamond MS, Hayes DN, Whelan SPJ, Horani A, Brody SL, Goldfarb D, Major MB, Kutluay SB (2021) Systematic analysis of SARS-CoV-2 infection of an ACE2-negative human airway cell.  Cell Rep 36, 109364

Eschbach JE, Elliott JL, Li W, Zadrozny KK, Davis K, Mohammed SJ, Lawson DQ, Pornillos O, Engelman AN, Kutluay SB (2020) Capsid lattice destabilization leads to premature loss of the viral genome and integrase enzyme during HIV-1 infection.  J Virol 95, e00984

Elliott JL, Eschbach JE, Kontur PC, Li W, Chavez MP, Townsend D, Lawson DQ, Engelman AN, Kvaratskhelia M, Kutluay SB (2020) Integrase-RNA interactions underscore the critical role of integrase HIV-1 virion morphogenesis.  eLife 9, 354311

Education:  B.S. Biology, Brown University (2024)

Rotations:  TBD

Thesis:  TBD

Education:  A.B. Biology, Washington U. in St. Louis (2021)

Rotation:  Stallings, Meyers, Holehouse, & Nusinow labs

Thesis: Interrogating the intersections between intrinsic disorder, evolution, and cellular organization

Activities:  Assistant Director, Young Scientist Program (YSP) Continuing Mentoring; General Committee Member, Student Advisory Committee (SAC); Student Co-Lead, Dept of Biochemistry & Molecular Biophysics Research Experience for Undergraduates Program

Publications:

Flynn AJ, Miller K, Codjoe JM, King MR, Haswell ES (2023) Mechanosensitive ion channels MSL8, MSL9, and MSL10 have environmentally sensitive intrinsically disordered regions with distinct biophysical characteristics in vitro.  Plant Direct 7, e515

Ginell GM, Flynn AJ, Holehouse AS (2023) SHEPHARD: a modular and extensible software architecture for analyzing and annotating large protein datasets.  Bioinformatics 39, btad488

Prusa J, Zhu DX, Flynn AJ, Jensen D, Manzano AR, Galburt EA, Stallings CL (2022) Molecular dissection of RbpA-mediated regulation of fidaxomicin sensitivity in mycobacteria. J Biol Chem 298, 101752

Education:  B.A. Biology, Hamilton College (2021)

Rotations:  Bose, Umen, & Kunkel labs

Thesis:  Characterizing the soil microbiomes of MO Ozark fens to produce targeted microbial treatments for degraded agricultural soils

Publication:

Ranaivoarisoa TO, Bai W, Karthikeyan R, Steele H, Silberman M, Olabode J, Conners E, Gallagher B, Bose A (2024) Overexpression of RuBisCO form I and II genes in Rhodopseudomonas palustris TIE-1 augments polyhydroxyalkanoate production heterotrophically and autotrophically.  Appl Environ Microbiol (in press)

Education:  B.S. Agricultural Biochemistry, Iowa State U. (2022)

Rotations:  Kunkel, Bart, Nusinow, & Amarasinghe labs

Thesis:  TBD

Education:  B.S. Plant Science, Cornell U. (2020)

Rotations:  Kunkel, Umen, Levin, & Haswell Labs

Thesis:  TBD

Activities:  Advertising Coordinator, InPrint

Education:  B.S. Chemistry, U.C.-Berkeley; M.S. Pharmaceutical Sciences, Northeastern U.

Thesis:  Dissecting N-terminus for CMT2 stability, DNA methylation, and adaptation

Activities:  2023 Arts & Science Dean’s Award for Graduate Research Excellence

Publication:

Jiang J, Gwee J, Fang J, Leichter SM, Sanders D, Ji X, Song J, Zhong X (2024) Substrate specificity and protein stability drive the divergence of plant-specific DNA methyltransferases. Science Adv 10, eadr2222

Sun Y, Revach OY, Anderson S, Kessler EA, Wolfe CH, Jenney A, Mills CE, Robitschek EJ, Davis TGR, Kim S, Fu A, Ma X, Gwee J, Tiwari P, Du PP, Sindurakar P, Tian J, Mehta A, Schneider AM, Yizhak K, Sade-Feldman M, LaSalle T, Sharova T, Xie H, Liu S, Michaud WA, Saad-Beretta R, Yates KB, Iracheta-Vellve A, Spetz JKE, Qin X, Sarosiek KA, Zhang G, Kim JW, Su MY, Cicerchia AM, Rasmussen MQ, Klempner SJ, Juric D, Pai SI, Miller DM, Giobbie-Hurder A, Chen JH, Pelka K, Frederick DT, Stinson S, Ivanova E, Aref AR, Paweletz CP, Barbie DA, Sen DR, Fisher DE, Corcoran RB, Hacohen N, Sorger PK, Flaherty KT, Boland GM, Manguso RT, Jenkins RW (2023) Targeting TBK1 to overcome resistance to cancer immunotherapy.  Nature 615, 158-67

Education:  B.S. Biochemistry and Biotechnology, U Missouri-St. Louis (2016)

Rotations:  Blodgett, Feldman, & F Zhang labs

Thesis:  Diversity and regulation of gene clusters for polycyclic tetramate macrolactam biosynthesis

Publications:

Lee CY, Harper CP, Lee SG, Qi Y, Clay T, Aoi Y, Jez JM, Kasahara H, Blodgett JAV, Kunkel BN (2024) Investigating the biosynthesis and roles of the auxin phenylacetic acid during Pseudomonas syringae-Arabidopsis thaliana pathogenesis.  Front Plant Sci 15, 1408833

Harper CP, Day A, Tsingos M, Ding E, Zeng E, Stumpf SD, Qi Y, Robinson A, Greif J, Blodgett JAV (2024) Critical analysis of polycyclic tetramate macrolactam biosynthetic gene cluster phylogeny and functional diversity.  Appl Environ Microbiol 90, e0060024

Djami-Tchatchou AT, Harrison GA, Harper CP, Wang R, Prigge M, Estelle M, Kunkel BN (2020) Dual role of auxin in regulating plant defense and bacterial virulence gene expression during Pseudomonas syringae strain DC3000 pathogenesis.  Mol Plant Microbe Interact 33, 1059-71

McClerklin SA, Lee SG, Harper CP, Nwumeh R, Jez JM, Kunkel BN (2018) Indole-3-acetaldehyde dehydrogenase-dependent auxin synthesis contributes to virulence of Pseudomonas syringae strain DC3000.  PLoS Pathogens 14, e1006811

Kunkel BN, Harper CP (2018) The roles of auxin during interactions between bacterial plant pathogens and their hosts.  J Exp Bot 69, 245-254

Education:  B.S. Biology, Canisius College (2022)

Rotations:  Bose, Bradley, Zaher, & Baxter labs

Thesis:  TBD

Education:  B.S. Genomics and Mathematics, U. Wisconsin-Madison (2022)

Rotations:  Jez, Meyers, & Zhong labs

Thesis:  TBD

Publication:

Jiang J, Gwee J, Fang J, Leichter SM, Sanders D, Ji X, Song J, Zhong X (2024) Substrate specificity and protein stability drive the divergence of plant-specific DNA methyltransferases. Science Adv 10, eadr2222

Education:  B.S. Biology, U. Florida (2018)

Rotations:  Bart, Baxter, Strader, & Meyers Labs

Thesis:  TBD

Publication:

Shi C, Zhang J, Wu B, Jouni R, Yu C, Meyers BC, Liang W, Fei Q (2022) Temperature-sensitive male sterility in rice determined by the roles of AGO1d in reproductive phasiRNA biogenesis and function.  New Phytol 236, 1529-44

Education:  B.S. Biochemistry, U. Minnesota-Twin Cities (2019); M.S. Plant Pathology, U. Minnesota-Twin Cities (2022)

Rotations:  Vogel, Doering, & Kunkel labs

Thesis:  TBD

Activities: PMB Steering Committee Student Representative; InPrint, Editor; Young Scientist Program Continuing Mentoring

Publication:

Education:  B.A. Biochemistry & Cell Biology, Rice U. (2021)

Rotation:  Kunkel, Bart, Nusinow, & Haswell labs

Thesis:  Investigating the interactions of light- and cold-responsive proteins in the Arabidopsis thaliana circadian clock

Activities:  Co-President, WUSTL Society for Advancement of Chicanos/Hispanics and Native Americans in Science (SACNAS); Co-President, Graduate Association of Latinx, Native American and Caribbean Students (GALNACS); Board Member, IMSD Student Board

Publications:

Sorkin ML, Tzeng SC, King S, Romanowski A, Kahle N, Bindbeutel R, Hiltbrunner A, Yanovsky MJ, Evans BS, Nusinow DA (2023) COLD REGULATED GENE 27 and 28 Antagonize the Transcriptional Activity of the RVE8/LNK1/LNK2 Circadian Complex.  Plant Physiol 192, 2436-56

Beal J, Farny NG, Haddock-Angelli T, Selvarajah V, Baldwin GS, Buckley-Taylor R, Gershater M, Kiga D, Marken J, Sanchania V, Sison A, Workman CT; iGEM Interlab Study Contributors* (2020) Robust estimation of bacterial cell count from optical density.  Commun Biol 3, 512 (*group author)

Education:  B.S. Genetics and Agronomy, University of Wisconsin – Madison (2023)

Rotations:  TBD

Thesis:  TBD

Education:  B.S. Biology, Cornell

Thesis:  Molecular mechanisms regulating plant de novo DNA methyltransferase

Education:  B.S. Agronomy, National Taiwan U. (2014); M.S. Agronomy, National Taiwan U. (2016)

Rotations:  Pakrasi, Vierstra, Kunkel, & Jez Labs

Thesis:  Characterizing the role of PmeR in the pathogenesis of Pseudomonas syringae

Publication:

Lee CY, Harper CP, Lee SG, Qi Y, Clay T, Aoi Y, Jez JM, Kasahara H, Blodgett JAV, Kunkel BN (2024) Investigating the biosynthesis and roles of the auxin phenylacetic acid during Pseudomonas syringae-Arabidopsis thaliana pathogenesis.  Front Plant Sci 15, 1408833

Hwang SG, Lee CY, Tseng CS (2018) Heterologous expression of rice 9-cis-epoxycarotenoid dioxygenase 4 (OsNCED4) in Arabidopsis confers sugar oversensitivity and drought tolerance.  Bot Studies 59, 2

Education:  B.S. Biochemistry & Molecular Biology, Wake Forest U. (2022)

Rotations:  Meyers, Stallings, & Nusinow labs

Thesis:  Investigation of Ago4’s catalytic activity’s role in de novo RNA-directed DNA methylation

Education:  B.S. Plant Sciences, Cornell U. (2020)

Rotations:  Wang, Meyers, & Topp Labs

Thesis:  TBD

Activities:  Adulting Co-Chair, DBBS Student Advisory Committee

Publications:

Ju Y, Liu AE, Oestreich K, Wang T, Topp CN, Ju T (2024) TopoRoot+: computing whorl and soil line traits of field-excavated maize roots from CT imaging.  Plant Methods 20, 132

Griffiths M, Liu AE, Gunn SL, Mutan NM, Morales EY, Topp CN (2023) A temporal analysis and response to nitrate availability of 3D root system architecture in diverse pennycress (Thlaspi arvense L.) accessions.  Front Plant Sci 14, 145389

Baldrich P, Liu A, Meyers BC, Fondong VN (2022) An atlas of small RNAs from potato.  Plant Direct 6, e466

Roberts R, Liu AE, Wan L, Geiger AM, Hind SR, Hosli HG, Martin GB (2020) Molecular characterization of differences between the tomato immune receptors Flagellin sensing 3 and Flagellin sensing 2.  Plant Physiol 183, 1825-27

Roberts R, Mainiero S, Powell AF, Liu AE, Shi K, Hind SR, Strickler SR, Collmer A, Martin GB (2019) Natural variation for unusual host responses and flagellin-mediated immunity against Pseudomonas syringae in genetically diverse tomato accessions.  New Phytol 223, 447-61

Education:  B.A. Biology, Grinnell College (2020)

Rotations:  Stallings, Hultgren, & Levin Labs

Thesis:  TBD

Publication:

Lopatto EDB, Pinkner JS, Sanick DA, Potter RF, Liu LX, Bazán Villicaña J, Tamadonfar KO, Ye Y, Zimmerman MI, Gualberto NC, Dodson KW, Janetka JW, Hunstad DA, Hultgren SJ (2024) Conformational ensembles in Klebsiella pneumoniae FimH impact uropathogenesis.  Proc Natl Acad Sci USA 121, e2409655121

Jacobs HM, O’Neal L, Lopatto E, Wozniak DJ, Bjarnsholt T, Parsek MR (2022) Mucoid Pseudomonas aeruginosa can produce calcium-gelled biofilms independent of the matrix components Psl and CdrA.  J Bacteriol 204, e0056821

Lopatto E, Choi J, Colina A, Ma L, Howe A, Hinsa-Leasure S (2019) Characterizing the soil microbiome and quantifying antibiotic resistance gene dynamics in agricultural soil following swine CAFO manure application.  PLoS One 14, e0220770

Education:  B.Eng. Biological Engineering, U. Missouri-Columbia (2016)

Rotations:  Dixit, Haswell, & Pakrasi Labs

Thesis:  TBD

Publications:

Mattoon EM, McHargue W, Bailey CE, Zhang N, Chen C, Eckhardt J, Daum CG, Zane M, Pennacchio C, Schmutz J, O’Malley RC, Cheng J, Zhang R (2023) High-throughput identification of novel heat tolerance genes via genome-wide pooled mutant screens in the model green alga Chlamydomonas reinhardtii.  Plant Cell Environ 46, 865-88

Zhang N, Mattoon EM, McHargue W, Venn B, Zimmer D, Pecani K, Jeong J, Anderson CM, Chen C, Berry JC, Xia M, Tzeng SC, Becker E, Pazouki L, Evans B, Cross F, Cheng J, Czymmek KJ, Schroda M, Muehlhaus T, Zhang R (2022) Systems-wide analysis revealed shared and unique responses to moderate and acute high temperatures in the green alga Chlamydomonas reinhardtii.  Commun Biol 5, 460

Anderson CM, Mattoon EM, Zhang N, Becker E, McHargue W, Yang J, Patel D, Dautermann O, McAdam SAM, Tarin T, Pathak S, Avenson TJ, Berry J, Braud M, Niyogi KK, Wilson M, Nusinow DA, Vargas R, Czymmek KJ, Eveland AL, Zhang R (2021) High light and temperature reduce photosynthetic efficiency through different mechanisms in the C4 model Setaria viridis.  Commun Biol 4, 1092

Kalra I, Wang X, Cvetkovska M, Jeong J, McHargue W, Zhang R, Huener N, Yuan JS, Morgan-Kiss R (2020) Chlamydomonas sp. UWO241 exhibits high cyclic electron flow and rewired metabolism under high salinity.  Plant Physiol 183, 588-601

Education:  B.S. Molecular Biology – Ohio Northern U (2023)

Rotations:  Baxter, Mansfeld, and Topp labs

Thesis:  Molecular mechanism of ontogenic disease response in tomato

Publication:

Mast E … Moses EA … Kagey JD (2022) Genetic mapping of Uba3 O.2.2 , a pupal lethal mutation in Drosophila melanogaster.  MicroPubl Biol 2022:10.17912

Education:  B.S. Life Science, National Taiwan University (2021); M.S. Life Science, National Taiwan University (2023)

Rotations:  TBD

Thesis:  TBD

Publications:

Nien TS, Chan TH, Li YY, Liu TS, Shiau YJ, Ho MY (2024) Two cyanobacterial species exhibit stress responses when grown together in visible light or far-red light.  mSphere 9, e0025124

Liu TS, Wu KF, Jiang HW, Chen KW, Nien TS, Bryant DA, Ho MY (2023) Identification of a far-red light-inducible promoter that exhibits light intensity dependency and reversibility in a cyanobacterium.  ACS Synth Biol 12, 1320-30

Nien TS, Bryant DA, Ho MY (2022) Use of quartz sand columns to study far-red light photoacclimation (FaRLiP) in cyanobacteria.  Appl Environ Microbiol 88, e0056222

Education:  B.S. Molecular & Cellular Biology, U. Pudget Sound (2020)

Rotations:  Meyers, Bart, & Zaher Labs

Thesis:  TBD

Publications:

Zhan J, O’Connor L, Marchant DB, Teng C, Walbot V, Meyers BC (2023) Coexpression network and trans-activation analyses of maize reproductive phasiRNA loci.   Plant J 113, 160-73

Qi M, Berry JC, Veley KW, O’Connor L, Finkel OM, Salas-González I, Kuhs M, Jupe J, Holcomb E, Glavina Del Rio T, Creech C, Liu P, Tringe SG, Dangl JL, Schachtman DP, Bart RS (2022) Identification of beneficial and detrimental bacteria impacting sorghum responses to drought using multi-scale and multi-system microbiome comparisons.  ISME J 16, 1957-69

Nan GL, Teng C, Fernandes J, O’Connor L, Meyers BC, Walbot V (2022) A cascade of bHLH-regulated pathways program maize anther development.  Plant Cell 34, 1207-25

Sepulveda-Garcia E, Fulton EC, Parlan EV, O’Connor LE, Fleming AA, Replogle AJ, Rocha-Sosa M, Gendron JM, Thines B (2021) Unique N-terminal interactions connect F-BOX STRESS INDUCED (FBS) proteins to a WD40 repeat-like protein pathway in Arabidopsis (2021) Plants 10, 2228

Education:  B.S. Biology, National Taras Shevchenko U of Kyiv (2016); M.S. Cell & Molecular Biology, U Arkansas – Fayetteville (2018)

Rotations:  Nusinow, Jez, Peterson, & Moon labs

Thesis:  Isolating and characterizing bacterial strains with an impact on plant health

Activities:  International Student Support Co-Chair, DBBS Student Advisory Committee

Publications:

Ramalingam V, Yu X, Slaughter BD, Unruh JR, Brennan KJ, Onyshchenko A, Lange JJ, Natarajan M, Buck M, Zeitlinger J (2023) Lola-I is a promoter pioneer factor that establishes de novo Pol II pausing during development.  Nature Comm 14, 5862

Onyshchenko A, Roberts WR, Ruck EC, Lewis JA, Alverson AJ (2021) The genome of a nonphotosynthetic diatom provides insights into the metabolic shift to heterotrophy and constraints on the loss of photosynthesis.  New Phytol 232, 1750-65

Onyshchenko A, Ruck EC, Nakov T, Alverson AJ (2019) A single loss of photosynthesis in the diatom order Bacillariales (Bacillariophyta).  Am J Bot 106, 560-572

Guillory WX, Onyshchenko A, Ruck EC, Parks M, Nakov T, Wickett NJ, Alverson AJ (2018) Recurrent loss, horizontal transfer, and the obscure origins of mitochondrial introns in diatoms (Bacillariophyta).  Genome Biol Evol 10, 1504-1515

Education:  B.S. Biotechnology, U. of Agricultural Sciences (2018); M.S. Plant Physiology, Indian Agricultural Research Institute (2020)

Rotations:  Bart, Nusinow, & Slotkin labs

Thesis:  Molecular dissection of initiation of epigenetic silencing in Arabidopsis

Publications:

Liu P, Panda K, Edwards SA, Swanson R, Yi H, Pandesha P, Hung YH, Klaas G, Ye X, Collins MV, Renken KN, Gilbertson LA, Veena V, Hancock CN, Slotkin RK (2024) Transposase-assisted target-site integration for efficient plant genome engineering. Nature 631, 593-600

Adavi B S, Pandesha PH, B J, Jha SK, Chinnusamy V, Sathee L (2023) Nitrate supply regulates tissue calcium abundance and transcript level of Calcineurin B-like (CBL) gene family in wheat.  Plant Physiol Biochem 199, 107724

Vineeth TV, Krishna GK, Pandesha PH, Sathee L, Thomas S, James D, Ravikiran KT, Taria S, John C, Vinaykumar NM, Lokeshkumar BM, Jat HS, Bose J, Camus D, Rathor S, Krishnamurthy SL, Sharma PC (2023) Photosynthetic machinery under salinity stress: trepidations and adaptive mechanisms.  Photosynthetica 61, 73-93

Sathee LB, Pandesha PH, Barman D, Adavi BS, Nagar S, Tripathi S, Jha SK, Chinnusamy V (2022) Genome editing targets for improving nutrient use efficiency and nutrient stress adaptation.  Front Genetics 13, 900897

Pandesha PH, Nagar S, Advani S, Chinnusamy V, Pandey R (2021) Functional annotation of hypothetical proteins involved in multiple stress response in Orzya sativa.  Ind J Agr Sci 91, 7

Education:  B.S. Biochemistry, Texas A&M University (2024)

Rotations:  TBD

Thesis:  TBD

Education:  B.S. Biotechnology, SUNY College of Environmental Science and Forestry (2019)

Rotations:  TBD

Thesis:  TBD

Publications:

Yu L, Sussman H, Khmelnitsky O, Rahmati Ishka M, Srinivasan A, Nelson ADL, Julkowska MM (2024) Development of a mobile, high-throughput, and low-cost image-based plant growth phenotyping system.  Plant Physiol 196, 810-29

Blunt EL, Choi J, Sussman H, Christopherson RC, Keen P, Rahmati Ishka M, Li LY, Idrovo JM, Julkowska MM, Van Eck J, Richards EJ (2023) The nuclear lamina is required for proper development and nuclear shape distortion in tomato.  J Exp Bot 74, 5500-13

Blunt EL, Shandler JA, Hughes EJ, Sussman H, Christopherson RC, Richards EJ (2020) Coordination of NMCP1- and NMCP2-class proteins within the plant nucleoskeleton.  Mol Biol Cell 31, 2948-58

Education:  B.S. Plant Sciences, U Arizona (2019)

Rotations:  Levin, Ben-Shahar, & Penczykowski labs

Thesis:  Illuminating the essential role of the outer membrane component and drug target lipopolysaccharide

Activity:  InPrint, Editor

Publication:

McKinney RM, Valdez R, Ben-Shahar Y (2021) The genetic architecture of larval aggregation behavior in Drosophila.  J Neurogenet 25, 1-16

Education:  B.S. Microbiology – Iowa State U (2023)

Rotations:  Bose, Bart, Bravo, and Kau labs

Thesis:  Elucidating the mechanism of lipid transfer from plant host to arbuscular mycorrhizal fungi

Education:  B.S. Biology, Huazhong Agricultural U. (2017); M.S. Biology, Auburn U. (2019)

Rotations:  Kutluay, Shan, & Griffith labs

Thesis:  TBD

Publications:

Puray-Chavez M, Eschbach JE, Xia M, LaPak KM, Zhou Q, Jasuja R, Pan J, Xu J, Zhou Z, Mohammed S, Wang Q, Lawson DQ, Djokic S, Hou G, Ding S, Brody SL, Major MB, Goldfarb D, Kutluay SB (2024) A basally active cGAS-STING pathway limits SARS-CoV-2 replication in a subset of ACE2 positive airway cell models.  Nature Commun 15, 8394

Zhang N, Venn B, Bailey CE, Xia M, Mattoon EM, Mühlhaus T, Zhang R (2024) Moderate high temperature is beneficial or detrimental depending on carbon availability in the green alga Chlamydomonas reinhardtii.  J Exp Bot 75, 979-1003

Education:  B.S. Biochemistry, University of California – San Diego (2024)

Rotations:  TBD

Thesis:  TBD