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Stephen R Lindemann - Publications

Affiliations: 
Purdue University, West Lafayette, IN, United States 
Area:
gut microbiome, bacterial pathogenesis, microbial ecology
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51 high-probability publications. We are testing a new system for linking publications to authors. You can help! If you notice any inaccuracies, please sign in and mark papers as correct or incorrect matches. If you identify any major omissions or other inaccuracies in the publication list, please let us know.

Year Citation  Score
2024 Yaşar A, Ryu HJ, Esen E, Sarıoğlan İ, Deemer D, Çetin B, Yoo SH, Lindemann SR, Lee BH, Tunçil YE. The branching ratio of enzymatically synthesized α-glucans impacts microbiome and metabolic outcomes of in vitro fecal fermentation. Carbohydrate Polymers. 335: 122087. PMID 38616077 DOI: 10.1016/j.carbpol.2024.122087  0.741
2024 Gurung M, Schlegel BT, Rajasundaram D, Fox R, Bode L, Yao T, Lindemann SR, LeRoith T, Read QD, Simecka C, Carroll L, Andres A, Yeruva L. Microbiota from human infants consuming secretors or non-secretors mothers' milk impacts the gut and immune system in mice. Msystems. e0029424. PMID 38530054 DOI: 10.1128/msystems.00294-24  0.755
2023 Şahin M, Arioglu-Tuncil S, Ünver A, Deemer D, Lindemann SR, Tunçil YE. Dietary Fibers of Tree Nuts Differ in Composition and Distinctly Impact the Fecal Microbiota and Metabolic Outcomes . Journal of Agricultural and Food Chemistry. PMID 37334468 DOI: 10.1021/acs.jafc.3c01415  0.748
2023 Yao T, Deemer DG, Chen MH, Reuhs BL, Hamaker BR, Lindemann SR. Differences in fine arabinoxylan structures govern microbial selection and competition among human gut microbiota. Carbohydrate Polymers. 316: 121039. PMID 37321733 DOI: 10.1016/j.carbpol.2023.121039  0.725
2021 Romero Marcia AD, Yao T, Chen MH, Oles RE, Lindemann SR. Fine Carbohydrate Structure of Dietary Resistant Glucans Governs the Structure and Function of Human Gut Microbiota. Nutrients. 13. PMID 34578800 DOI: 10.3390/nu13092924  0.802
2021 Zhao S, Dien BS, Lindemann SR, Chen MH. Controlling autohydrolysis conditions to produce xylan-derived fibers that modulate gut microbiota responses and metabolic outputs. Carbohydrate Polymers. 271: 118418. PMID 34364559 DOI: 10.1016/j.carbpol.2021.118418  0.329
2020 Madigan MT, Kempher ML, Bender KS, Jung DO, Sattley WM, Lindemann SR, Konopka AE, Dohnalkova AC, Fredrickson JK. A Green Sulfur Bacterium From Epsomitic Hot Lake, Washington, USA. Canadian Journal of Microbiology. PMID 33136441 DOI: 10.1139/cjm-2020-0462  0.52
2020 Lindemann SR. A piece of the pie: engineering microbiomes by exploiting division of labor in complex polysaccharide consumption. Current Opinion in Chemical Engineering. 30: 96-102. PMID 32968619 DOI: 10.1016/j.coche.2020.08.004  0.306
2020 Yao T, Chen MH, Lindemann SR. Structurally complex carbohydrates maintain diversity in gut-derived microbial consortia under high dilution pressure. Fems Microbiology Ecology. PMID 32815998 DOI: 10.1093/Femsec/Fiaa158  0.791
2020 Thakkar RD, Tuncil YE, Hamaker BR, Lindemann SR. Maize Bran Particle Size Governs the Community Composition and Metabolic Output of Human Gut Microbiota in Fermentations. Frontiers in Microbiology. 11: 1009. PMID 32523569 DOI: 10.3389/Fmicb.2020.01009  0.638
2020 Anderton CR, Mobberley JM, Cole JK, Nunez JR, Starke R, Boaro AA, Yesiltepe Y, Morton BR, Cory AB, Cardamone HC, Hofmockel KS, Lipton MS, Moran JJ, Renslow RS, Fredrickson JK, ... Lindemann SR, et al. Nitrogen Source Governs Community Carbon Metabolism in a Model Hypersaline Benthic Phototrophic Biofilm. Msystems. 5. PMID 32518194 DOI: 10.1128/mSystems.00260-20  0.576
2020 Tuncil YE, Thakkar RD, Arioglu-Tuncil S, Hamaker BR, Lindemann SR. Subtle Variations in Dietary-Fiber Fine Structure Differentially Influence the Composition and Metabolic Function of Gut Microbiota. Msphere. 5. PMID 32376698 DOI: 10.1128/mSphere.00180-20  0.574
2019 Lee JY, Haruta S, Kato S, Bernstein HC, Lindemann SR, Lee DY, Fredrickson JK, Song HS. Prediction of Neighbor-Dependent Microbial Interactions From Limited Population Data. Frontiers in Microbiology. 10: 3049. PMID 32038529 DOI: 10.3389/Fmicb.2019.03049  0.597
2019 Sevim V, Lee J, Egan R, Clum A, Hundley H, Lee J, Everroad RC, Detweiler AM, Bebout BM, Pett-Ridge J, Göker M, Murray AE, Lindemann SR, Klenk HP, O'Malley R, et al. Shotgun metagenome data of a defined mock community using Oxford Nanopore, PacBio and Illumina technologies. Scientific Data. 6: 285. PMID 31772173 DOI: 10.1038/S41597-019-0287-Z  0.419
2019 Song HS, Lee JY, Haruta S, Nelson WC, Lee DY, Lindemann SR, Fredrickson JK, Bernstein HC. Minimal Interspecies Interaction Adjustment (MIIA): Inference of Neighbor-Dependent Interactions in Microbial Communities. Frontiers in Microbiology. 10: 1264. PMID 31263456 DOI: 10.3389/Fmicb.2019.01264  0.61
2019 Zengler K, Hofmockel K, Baliga NS, Behie SW, Bernstein HC, Brown JB, Dinneny JR, Floge SA, Forry SP, Hess M, Jackson SA, Jansson C, Lindemann SR, Pett-Ridge J, Maranas C, et al. EcoFABs: advancing microbiome science through standardized fabricated ecosystems. Nature Methods. PMID 31227812 DOI: 10.1038/S41592-019-0465-0  0.439
2019 Lindemann SR. Microbial Ecology: Functional 'Modules' Drive Assembly of Polysaccharide-Degrading Marine Microbial Communities. Current Biology : Cb. 29: R330-R332. PMID 31063726 DOI: 10.1016/J.Cub.2019.03.056  0.494
2019 Biruete A, Hill Gallant KM, Lindemann SR, Wiese GN, Chen NX, Moe SM. Phosphate Binders and Nonphosphate Effects in the Gastrointestinal Tract. Journal of Renal Nutrition : the Official Journal of the Council On Renal Nutrition of the National Kidney Foundation. PMID 30846238 DOI: 10.1053/J.Jrn.2019.01.004  0.304
2019 Bohutskyi P, McClure RS, Hill EA, Nelson WC, Chrisler WB, Nuñez JR, Renslow RS, Charania MA, Lindemann SR, Beliaev AS. Metabolic effects of vitamin B12 on physiology, stress resistance, growth rate and biomass productivity of Cyanobacterium stanieri planktonic and biofilm cultures Algal Research. 42: 101580. DOI: 10.1016/J.Algal.2019.101580  0.435
2018 Tuncil YE, Thakkar RD, Marcia ADR, Hamaker BR, Lindemann SR. Divergent short-chain fatty acid production and succession of colonic microbiota arise in fermentation of variously-sized wheat bran fractions. Scientific Reports. 8: 16655. PMID 30413754 DOI: 10.1038/S41598-018-34912-8  0.614
2018 Tuncil YE, Thakkar RD, Arioglu-Tuncil S, Hamaker BR, Lindemann SR. Fecal microbiota responses to bran particles are specific to cereal type and in vitro digestion methods that mimic upper gastrointestinal tract passage. Journal of Agricultural and Food Chemistry. PMID 30406656 DOI: 10.1021/Acs.Jafc.8B03469  0.5
2018 Rosnow JJ, Hwang S, Killinger BJ, Kim YM, Moore RJ, Lindemann SR, Maupin-Furlow JA, Wright AT. Cobalamin activity-based probe enables microbial cell growth and finds new cobalamin-protein interactions across domains. Applied and Environmental Microbiology. PMID 30006406 DOI: 10.1128/Aem.00955-18  0.301
2018 Cole JK, Morton BR, Cardamone HC, Lake HRR, Dohnalkova AC, Kim YM, Kyle JE, Maezato Y, Dana KL, Metz TO, Romine MF, Nelson WC, Lindemann SR. Corrigendum: Saliniramus fredricksonii gen. nov., sp. nov., a heterotrophic halophile isolated from Hot Lake, Washington, a member of a novel lineage (Salinarimonadaceae fam. nov.) within the order Rhizobiales, and reclassification of the genus Salinarimonas Liu et al. 2010 into Salinarimonadaceae. International Journal of Systematic and Evolutionary Microbiology. 68: 2116-2123. PMID 29855404 DOI: 10.1099/Ijsem.0.002807  0.317
2018 Cole JK, Morton BR, Cardamone HC, Lake HRR, Dohnalkova AC, Kim YM, Kyle JE, Maezato Y, Dana KL, Metz TO, Romine MF, Nelson WC, Lindemann SR. Salinivirga fredricksonii gen. nov., sp. nov., a heterotrophic halophile isolated from a photosynthetic mat, a member of a novel lineage (Salinarimonadaceae fam. nov.) within the order Rhizobiales, and reclassification of the genus Salinarimonas Liu et al. 2010 into Salinarimonadaceae. International Journal of Systematic and Evolutionary Microbiology. PMID 29580321 DOI: 10.1099/Ijsem.0.002715  0.318
2018 Mobberley JM, Romine MF, Cole JK, Maezato Y, Lindemann SR, Nelson WC. Draft Genome Sequence ofsp. Strain HL-69, Isolated from a Benthic Microbial Mat from a Magnesium Sulfate-Dominated Hypersaline Lake. Genome Announcements. 6. PMID 29439050 DOI: 10.1128/Genomea.01583-17  0.31
2017 Lindemann SR, Mobberley JM, Cole JK, Markillie LM, Taylor RC, Huang E, Chrisler WB, Wiley HS, Lipton MS, Nelson WC, Fredrickson JK, Romine MF. Predicting Species-Resolved Macronutrient Acquisition during Succession in a Model Phototrophic Biofilm Using an Integrated 'Omics Approach. Frontiers in Microbiology. 8: 1020. PMID 28659875 DOI: 10.3389/Fmicb.2017.01020  0.606
2017 Mobberley JM, Lindemann SR, Bernstein HC, Moran JJ, Renslow RS, Babauta J, Hu D, Beyenal H, Nelson WC. Organismal and spatial partitioning of energy and macronutrient transformations within a hypersaline mat. Fems Microbiology Ecology. PMID 28334407 DOI: 10.1093/Femsec/Fix028  0.405
2017 Ha PT, Lindemann SR, Shi L, Dohnalkova AC, Fredrickson JK, Madigan MT, Beyenal H. Syntrophic anaerobic photosynthesis via direct interspecies electron transfer. Nature Communications. 8: 13924. PMID 28067226 DOI: 10.1038/Ncomms13924  0.528
2016 Bernstein HC, Brislawn C, Renslow RS, Dana K, Morton B, Lindemann SR, Song HS, Atci E, Beyenal H, Fredrickson JK, Jansson JK, Moran JJ. Trade-offs between microbiome diversity and productivity in a stratified microbial mat. The Isme Journal. PMID 27801910 DOI: 10.1038/Ismej.2016.133  0.556
2016 Renslow RS, Lindemann SR, Song HS. A Generalized Spatial Measure for Resilience of Microbial Systems. Frontiers in Microbiology. 7: 443. PMID 27092116 DOI: 10.3389/Fmicb.2016.00443  0.302
2016 Lindemann SR, Bernstein HC, Song HS, Fredrickson JK, Fields MW, Shou W, Johnson DR, Beliaev AS. Engineering microbial consortia for controllable outputs. The Isme Journal. PMID 26967105 DOI: 10.1038/Ismej.2016.26  0.583
2016 Renslow RS, Lindemann SR, Cole JK, Zhu Z, Anderton CR. Quantifying element incorporation in multispecies biofilms using nanoscale secondary ion mass spectrometry image analysis. Biointerphases. 11: 02A322. PMID 26872582 DOI: 10.1116/1.4941764  0.344
2016 Mohamed A, Ewing T, Lindemann SR, Fredrickson JK, Beyenal H. Autonomous Device for Evaluating the Field Performance of Microbial Fuel Cells in Remote Areas Journal of the Electrochemical Society. 164: H3030-H3036. DOI: 10.1149/2.0041703Jes  0.465
2016 Zachara JM, Moran JJ, Resch CT, Lindemann SR, Felmy AR, Bowden ME, Cory AB, Fredrickson JK. Geo- and biogeochemical processes in a heliothermal hypersaline lake Geochimica Et Cosmochimica Acta. 181: 144-163. DOI: 10.1016/J.Gca.2016.02.001  0.49
2015 Song HS, Renslow RS, Fredrickson JK, Lindemann SR. Integrating Ecological and Engineering Concepts of Resilience in Microbial Communities. Frontiers in Microbiology. 6: 1298. PMID 26648912 DOI: 10.3389/Fmicb.2015.01298  0.569
2015 Nelson WC, Maezato Y, Wu YW, Romine MF, Lindemann SR. Identification and resolution of microdiversity through metagenomic sequencing of parallel consortia. Applied and Environmental Microbiology. PMID 26497460 DOI: 10.1128/Aem.02274-15  0.36
2015 Ha PT, Renslow RS, Atci E, Reardon PN, Lindemann SR, Fredrickson JK, Call DR, Beyenal H. Regulation of electron transfer processes affects phototrophic mat structure and activity. Frontiers in Microbiology. 6: 909. PMID 26388853 DOI: 10.3389/Fmicb.2015.00909  0.53
2015 Konopka A, Lindemann S, Fredrickson J. Dynamics in microbial communities: unraveling mechanisms to identify principles. The Isme Journal. 9: 1488-95. PMID 25526370 DOI: 10.1038/Ismej.2014.251  0.568
2014 Moran JJ, Doll CG, Bernstein HC, Renslow RS, Cory AB, Hutchison JR, Lindemann SR, Fredrickson JK. Spatially tracking (13) C-labelled substrate (bicarbonate) accumulation in microbial communities using laser ablation isotope ratio mass spectrometry. Environmental Microbiology Reports. 6: 786-91. PMID 25155264 DOI: 10.1111/1758-2229.12211  0.529
2014 Cole JK, Hutchison JR, Renslow RS, Kim YM, Chrisler WB, Engelmann HE, Dohnalkova AC, Hu D, Metz TO, Fredrickson JK, Lindemann SR. Phototrophic biofilm assembly in microbial-mat-derived unicyanobacterial consortia: model systems for the study of autotroph-heterotroph interactions. Frontiers in Microbiology. 5: 109. PMID 24778628 DOI: 10.3389/Fmicb.2014.00109  0.616
2014 Stolyar S, Liu Z, Thiel V, Tomsho LP, Pinel N, Nelson WC, Lindemann SR, Romine MF, Haruta S, Schuster SC, Bryant DA, Fredrickson JK. Genome Sequence of the Thermophilic Cyanobacterium Thermosynechococcus sp. Strain NK55a. Genome Announcements. 2. PMID 24482507 DOI: 10.1128/Genomea.01060-13  0.524
2014 Babauta JT, Atci E, Ha PT, Lindemann SR, Ewing T, Call DR, Fredrickson JK, Beyenal H. Localized electron transfer rates and microelectrode-based enrichment of microbial communities within a phototrophic microbial mat. Frontiers in Microbiology. 5: 11. PMID 24478768 DOI: 10.3389/Fmicb.2014.00011  0.57
2014 Rasmussen JA, Post DM, Gibson BW, Lindemann SR, Apicella MA, Meyerholz DK, Jones BD. Francisella tularensis Schu S4 lipopolysaccharide core sugar and O-antigen mutants are attenuated in a mouse model of tularemia. Infection and Immunity. 82: 1523-39. PMID 24452684 DOI: 10.1128/Iai.01640-13  0.619
2013 Lindemann SR, Moran JJ, Stegen JC, Renslow RS, Hutchison JR, Cole JK, Dohnalkova AC, Tremblay J, Singh K, Malfatti SA, Chen F, Tringe SG, Beyenal H, Fredrickson JK. The epsomitic phototrophic microbial mat of Hot Lake, Washington: community structural responses to seasonal cycling. Frontiers in Microbiology. 4: 323. PMID 24312082 DOI: 10.3389/Fmicb.2013.00323  0.596
2013 Long ME, Lindemann SR, Rasmussen JA, Jones BD, Allen LA. Disruption of Francisella tularensis Schu S4 iglI, iglJ, and pdpC genes results in attenuation for growth in human macrophages and in vivo virulence in mice and reveals a unique phenotype for pdpC. Infection and Immunity. 81: 850-61. PMID 23275090 DOI: 10.1128/Iai.00822-12  0.63
2012 Lindemann S, Moran J, Dohnalkova A, Kim Y, Kennedy D, Stolyar S, Majors P, Wiley H, Konopka A, Fredrickson J. Microbial Diversity and Biogeochemical Function of the Phototrophic Microbial Mats of Epsomitic Hot Lake, WA Microscopy and Microanalysis. 18: 10-11. DOI: 10.1017/S1431927612001900  0.557
2011 Lindemann SR, Peng K, Long ME, Hunt JR, Apicella MA, Monack DM, Allen LA, Jones BD. Francisella tularensis Schu S4 O-antigen and capsule biosynthesis gene mutants induce early cell death in human macrophages. Infection and Immunity. 79: 581-94. PMID 21078861 DOI: 10.1128/Iai.00863-10  0.616
2010 McCaffrey RL, Schwartz JT, Lindemann SR, Moreland JG, Buchan BW, Jones BD, Allen LA. Multiple mechanisms of NADPH oxidase inhibition by type A and type B Francisella tularensis. Journal of Leukocyte Biology. 88: 791-805. PMID 20610796 DOI: 10.1189/Jlb.1209811  0.726
2009 Buchan BW, McCaffrey RL, Lindemann SR, Allen LA, Jones BD. Identification of migR, a regulatory element of the Francisella tularensis live vaccine strain iglABCD virulence operon required for normal replication and trafficking in macrophages. Infection and Immunity. 77: 2517-29. PMID 19349423 DOI: 10.1128/Iai.00229-09  0.728
2009 Schulert GS, McCaffrey RL, Buchan BW, Lindemann SR, Hollenback C, Jones BD, Allen LA. Francisella tularensis genes required for inhibition of the neutrophil respiratory burst and intramacrophage growth identified by random transposon mutagenesis of strain LVS. Infection and Immunity. 77: 1324-36. PMID 19204089 DOI: 10.1128/Iai.01318-08  0.726
2007 Lindemann SR, McLendon MK, Apicella MA, Jones BD. An in vitro model system used to study adherence and invasion of Francisella tularensis live vaccine strain in nonphagocytic cells. Infection and Immunity. 75: 3178-82. PMID 17339345 DOI: 10.1128/Iai.01811-06  0.592
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