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Genomes and secretomes of Ascomycota fungi reveal diverse functions in plant biomass decomposition and pathogenesis.
Published in:
BMC Genomics, 2019, v. 20, n. 1, p. 1, doi. 10.1186/s12864-019-6358-x
By:
- Challacombe, Jean F.;
- Hesse, Cedar N.;
- Bramer, Lisa M.;
- McCue, Lee Ann;
- Lipton, Mary;
- Purvine, Samuel;
- Nicora, Carrie;
- Gallegos-Graves, La Verne;
- Porras-Alfaro, Andrea;
- Kuske, Cheryl R.
Publication type:
Article
Decrypting bacterial polyphenol metabolism in an anoxic wetland soil.
Published in:
Nature Communications, 2021, v. 12, n. 1, p. 1, doi. 10.1038/s41467-021-22765-1
By:
- McGivern, Bridget B.;
- Tfaily, Malak M.;
- Borton, Mikayla A.;
- Kosina, Suzanne M.;
- Daly, Rebecca A.;
- Nicora, Carrie D.;
- Purvine, Samuel O.;
- Wong, Allison R.;
- Lipton, Mary S.;
- Hoyt, David W.;
- Northen, Trent R.;
- Hagerman, Ann E.;
- Wrighton, Kelly C.
Publication type:
Article
Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens.
Published in:
ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2012, v. 6, n. 9, p. 1688, doi. 10.1038/ismej.2012.10
By:
- Aylward, Frank O;
- Burnum, Kristin E;
- Scott, Jarrod J;
- Suen, Garret;
- Tringe, Susannah G;
- Adams, Sandra M;
- Barry, Kerrie W;
- Nicora, Carrie D;
- Piehowski, Paul D;
- Purvine, Samuel O;
- Starrett, Gabriel J;
- Goodwin, Lynne A;
- Smith, Richard D;
- Lipton, Mary S;
- Currie, Cameron R
Publication type:
Article
Proteome insights into the symbiotic relationship between a captive colony of Nasutitermes corniger and its hindgut microbiome.
Published in:
ISME Journal: Multidisciplinary Journal of Microbial Ecology, 2011, v. 5, n. 1, p. 161, doi. 10.1038/ismej.2010.97
By:
- Burnum, Kristin E;
- Callister, Stephen J;
- Nicora, Carrie D;
- Purvine, Samuel O;
- Hugenholtz, Philip;
- Warnecke, Falk;
- Scheffrahn, Rudolf H;
- Smith, Richard D;
- Lipton, Mary S
Publication type:
Article
The study of macromolecular complexes by quantitative proteomics.
Published in:
Nature Genetics, 2003, v. 33, n. 3, p. 349, doi. 10.1038/ng1101
By:
- Ranish, Jeffrey A.;
- Yi, Eugene C.;
- Leslie, Deena M.;
- Purvine, Samuel O.;
- Goodlett, David R.;
- Eng, Jimmy;
- Aebersold, Ruedi
Publication type:
Article
Structural reorganization of the fungal endoplasmic reticulum upon induction of mycotoxin biosynthesis.
Published in:
Scientific Reports, 2017, p. 44296, doi. 10.1038/srep44296
By:
- Boenisch, Marike Johanne;
- Broz, Karen Lisa;
- Purvine, Samuel Owen;
- Chrisler, William Byron;
- Nicora, Carrie Diana;
- Connolly, Lanelle Reine;
- Freitag, Michael;
- Baker, Scott Edward;
- Kistler, Harold Corby
Publication type:
Article
High‐throughput sequencing of the chloroplast and mitochondrion of <italic>Chlamydomonas reinhardtii</italic> to generate improved <italic>de novo</italic> assemblies, analyze expression patterns and transcript speciation, and evaluate diversity among laboratory strains and wild isolates
Published in:
Plant Journal, 2018, v. 93, n. 3, p. 545, doi. 10.1111/tpj.13788
By:
- Gallaher, Sean D.;
- Fitz‐Gibbon, Sorel T.;
- Strenkert, Daniela;
- Purvine, Samuel O.;
- Pellegrini, Matteo;
- Merchant, Sabeeha S.
Publication type:
Article
Correction: Enrichment and Broad Representation of Plant Biomass-Degrading Enzymes in the Specialized Hyphal Swellings of Leucoagaricus gongylophorus, the Fungal Symbiont of Leaf-Cutter Ants.
Published in:
PLoS ONE, 2015, v. 10, n. 9, p. 1, doi. 10.1371/journal.pone.0139151
By:
- Aylward, Frank O.;
- Khadempour, Lily;
- Tremmel, Daniel M.;
- McDonald, Bradon R.;
- Nicora, Carrie D.;
- Wu, Si;
- Moore, Ronald J.;
- Orton, Daniel J.;
- Monroe, Matthew E.;
- Piehowski, Paul D.;
- Purvine, Samuel O.;
- Smith, Richard D.;
- Lipton, Mary S.;
- Burnum-Johnson, Kristin E.;
- Currie, Cameron R.
Publication type:
Article
Enrichment and Broad Representation of Plant Biomass-Degrading Enzymes in the Specialized Hyphal Swellings of Leucoagaricus gongylophorus, the Fungal Symbiont of Leaf-Cutter Ants.
Published in:
PLoS ONE, 2015, v. 10, n. 8, p. 1, doi. 10.1371/journal.pone.0134752
By:
- Aylward, Frank O.;
- Khadempour, Lily;
- Tremmel, Daniel M.;
- McDonald, Bradon R.;
- Nicora, Carrie D.;
- Wu, Si;
- Moore, Ronald J.;
- Orton, Daniel J.;
- Monroe, Matthew E.;
- Piehowski, Paul D.;
- Purvine, Samuel O.;
- Smith, Richard D.;
- Lipton, Mary S.;
- Burnum-Johnson, Kristin E.;
- Currie, Cameron R.
Publication type:
Article
A Multi-Omic View of Host-Pathogen-Commensal Interplay in <i>Salmonella</i>-Mediated Intestinal Infection.
Published in:
PLoS ONE, 2013, v. 8, n. 6, p. 1, doi. 10.1371/journal.pone.0067155
By:
- Deatherage Kaiser, Brooke L.;
- Li, Jie;
- Sanford, James A.;
- Kim, Young-Mo;
- Kronewitter, Scott R.;
- Jones, Marcus B.;
- Peterson, Christine T.;
- Peterson, Scott N.;
- Frank, Bryan C.;
- Purvine, Samuel O.;
- Brown, Joseph N.;
- Metz, Thomas O.;
- Smith, Richard D.;
- Heffron, Fred;
- Adkins, Joshua N.
Publication type:
Article
Comparative Omics-Driven Genome Annotation Refinement: Application across Yersiniae.
Published in:
PLoS ONE, 2012, v. 7, n. 3, p. 1, doi. 10.1371/journal.pone.0033903
By:
- Schrimpe-Rutledge, Alexandra C.;
- Jones, Marcus B.;
- Chauhan, Sadhana;
- Purvine, Samuel O.;
- Sanford, James A.;
- Monroe, Matthew E.;
- Brewer, Heather M.;
- Payne, Samuel H.;
- Ansong, Charles;
- Frank, Bryan C.;
- Smith, Richard D.;
- Peterso, Scott N.;
- Motin, Vladimir L.;
- Adkins, Joshua N.
Publication type:
Article
Phosphoproteomics Profiling of Human Skin Fibroblast Cells Reveals Pathways and Proteins Affected by Low Doses of Ionizing Radiation.
Published in:
PLoS ONE, 2010, v. 5, n. 11, p. 1, doi. 10.1371/journal.pone.0014152
By:
- Feng Yang;
- Waters, Katrina M.;
- Miller, John H.;
- Gritsenko, Marina A.;
- Rui Zhao;
- Xiuxia Du;
- Livesay, Eric A.;
- Purvine, Samuel O.;
- Monroe, Matthew E.;
- Yingchun Wang;
- Camp II, David G.;
- Smith, Richard D.;
- Stenoien, David L.
Publication type:
Article
Blood Peptidome-Degradome Profile of Breast Cancer.
Published in:
PLoS ONE, 2010, v. 5, n. 10, p. 1, doi. 10.1371/journal.pone.0013133
By:
- Yufeng Shen;
- Tolić, Nikola;
- Tao Liu;
- Rui Zhao;
- Petritis, Brianne O.;
- Gritsenko, Marina A.;
- Camp, David G.;
- Moore, Ronald J.;
- Purvine, Samuel O.;
- Esteva, Francisco J.;
- Smith, Richard D.
Publication type:
Article
Establishing the Proteome of Normal Human Cerebrospinal Fluid.
Published in:
PLoS ONE, 2010, v. 5, n. 6, p. 1, doi. 10.1371/journal.pone.0010980
By:
- Schutzer, Steven E.;
- Tao Liu;
- Natelson, Benjamin H.;
- Angel, Thomas E.;
- Schepmoes, Athena A.;
- Purvine, Samuel O.;
- Hixson, Kim K.;
- Lipton, Mary S.;
- Camp II, David G.;
- Patricia K. Coyle;
- Smith, Richard D.;
- Bergquist, Jonas
Publication type:
Article
Evidence-based green algal genomics reveals marine diversity and ancestral characteristics of land plants.
Published in:
BMC Genomics, 2016, v. 17, p. 1, doi. 10.1186/s12864-016-2585-6
By:
- van Baren, Marijke J.;
- Bachy, Charles;
- Nahas Reistetter, Emily;
- Purvine, Samuel O.;
- Grimwood, Jane;
- Sudek, Sebastian;
- Hang Yu;
- Poirier, Camille;
- Deerinck, Thomas J.;
- Kuo, Alan;
- Grigoriev, Igor V.;
- Chee-Hong Wong;
- Smith, Richard D.;
- Callister, Stephen J.;
- Chia-Lin Wei;
- Schmutz, Jeremy;
- Worden, Alexandra Z.
Publication type:
Article
Multi-omics analysis reveals regulators of the response to nitrogen limitation in Yarrowia lipolytica.
Published in:
BMC Genomics, 2016, v. 17, p. 1, doi. 10.1186/s12864-016-2471-2
By:
- Pomraning, Kyle R.;
- Young-Mo Kim;
- Nicora, Carrie D.;
- Chu, Rosalie K.;
- Bredeweg, Erin L.;
- Purvine, Samuel O.;
- Dehong Hu;
- Metz, Thomas O.;
- Baker, Scott E.
Publication type:
Article
Shotgun collision-induced dissociation of peptides using a time of flight mass analyzer.
Published in:
Proteomics, 2003, v. 3, n. 6, p. 847, doi. 10.1002/pmic.200300362
By:
- Samuel Purvine;
- Jason-Thomas Eppel*;
- Eugene C. Yi;
- David R. Goodlett
Publication type:
Article
Approaching complete peroxisome characterization by gas-phase fractionation.
Published in:
Electrophoresis, 2002, v. 23, n. 18, p. 3205, doi. 10.1002/1522-2683(200209)23:18<3205::AID-ELPS3205>3.0.CO;2-Y
By:
- Yi, Eugene C.;
- Marelli, Marcello;
- Lee, Hookeun;
- Purvine, Samuel O.;
- Aebersold, Ruedi;
- Aitchison, John D.;
- Goodlett, David R.
Publication type:
Article
The Chlamydomonas Genome Project, version 6: Reference assemblies for mating-type plus and minus strains reveal extensive structural mutation in the laboratory.
Published in:
Plant Cell, 2023, v. 35, n. 2, p. 644, doi. 10.1093/plcell/koac347
By:
- Craig, Rory J;
- Gallaher, Sean D;
- Shu, Shengqiang;
- Salomé, Patrice A;
- Jenkins, Jerry W;
- Blaby-Haas, Crysten E;
- Purvine, Samuel O;
- O'Donnell, Samuel;
- Barry, Kerrie;
- Grimwood, Jane;
- Strenkert, Daniela;
- Kropat, Janette;
- Daum, Chris;
- Yoshinaga, Yuko;
- Goodstein, David M;
- Vallon, Olivier;
- Schmutz, Jeremy;
- Merchant, Sabeeha S
Publication type:
Article
Identification and functional analysis of ‘hypothetical’ genes expressed in Haemophilus influenzae.
Published in:
Nucleic Acids Research, 2004, v. 32, n. 8, p. 2353, doi. 10.1093/nar/gkh555
By:
- Kolker, Eugene;
- Makarova, Kira S.;
- Shabalina, Svetlana;
- Picone, Alex F.;
- Purvine, Samuel;
- Holzman, Ted;
- Cherny, Tim;
- Armbruster, David;
- Munson, Robert S.;
- Kolesov, Grigory;
- Frishman, Dmitrij;
- Galperin, Michael Y.
Publication type:
Article
Omic data from evolved E. coli are consistent with computed optimal growth from genome-scale models.
Published in:
Molecular Systems Biology, 2010, v. 6, n. 1, p. 1, doi. 10.1038/msb.2010.47
By:
- Lewis, Nathan E;
- Hixson, Kim K;
- Conrad, Tom M;
- Lerman, Joshua A;
- Charusanti, Pep;
- Polpitiya, Ashoka D;
- Adkins, Joshua N;
- Schramm, Gunnar;
- Purvine, Samuel O;
- Lopez‐Ferrer, Daniel;
- Weitz, Karl K;
- Eils, Roland;
- König, Rainer;
- Smith, Richard D;
- Palsson, Bernhard Ø
Publication type:
Article
Proteogenomics: needs and roles to be filled by proteomics in genome annotation.
Published in:
Briefings in Functional Genomics & Proteomics, 2008, v. 7, n. 1, p. 50, doi. 10.1093/bfgp/eln010
By:
- Ansong, Charles;
- Purvine, Samuel O.;
- Adkins, Joshua N.;
- Lipton, Mary S.;
- Smith, Richard D.
Publication type:
Article
Dichomitus squalens partially tailors its molecular responses to the composition of solid wood.
Published in:
Environmental Microbiology, 2018, v. 20, n. 11, p. 4141, doi. 10.1111/1462-2920.14416
By:
- Daly, Paul;
- López, Sara Casado;
- Peng, Mao;
- Lancefield, Christopher S.;
- Purvine, Samuel O.;
- Kim, Young‐Mo;
- Zink, Erika M.;
- Dohnalkova, Alice;
- Singan, Vasanth R.;
- Lipzen, Anna;
- Dilworth, David;
- Wang, Mei;
- Ng, Vivian;
- Robinson, Errol;
- Orr, Galya;
- Baker, Scott E.;
- Bruijnincx, Pieter C. A.;
- Hildén, Kristiina S.;
- Grigoriev, Igor V.;
- Mäkelä, Miia R.
Publication type:
Article
High resolution visualization and exo-proteomics reveal the physiological role of XlnR and AraR in plant biomass colonization and degradation by Aspergillus niger.
Published in:
Environmental Microbiology, 2017, v. 19, n. 11, p. 4587, doi. 10.1111/1462-2920.13923
By:
- Kowalczyk, Joanna E.;
- Khosravi, Claire;
- Purvine, Samuel;
- Dohnalkova, Alice;
- Chrisler, William B.;
- Orr, Galya;
- Robinson, Errol;
- Zink, Erika;
- WiebENga, Ad;
- PENg, Mao;
- Battaglia, Evy;
- Baker, Scott;
- de Vries, Ronald P.
Publication type:
Article
Zn deficiency disrupts Cu and S homeostasis in Chlamydomonas resulting in over accumulation of Cu and Cysteine.
Published in:
Metallomics, 2023, v. 15, n. 7, p. 1, doi. 10.1093/mtomcs/mfad043
By:
- Strenkert, Daniela;
- Schmollinger, Stefan;
- Hu, Yuntao;
- Hofmann, Christian;
- Holbrook, Kristen;
- Liu, Helen W;
- Purvine, Samuel O;
- Nicora, Carrie D;
- Chen, Si;
- Lipton, Mary S;
- Northen, Trent R;
- Clemens, Stephan;
- Merchant, Sabeeha S
Publication type:
Article
Differential stable isotope labeling of peptides for quantitation and de novo sequence derivation.
Published in:
Rapid Communications in Mass Spectrometry: RCM, 2001, v. 15, n. 14, p. 1214, doi. 10.1002/rcm.362
By:
- Goodlett, David R.;
- Keller, Andrew;
- Watts, Julian D.;
- Newitt, Richard;
- Yi, Eugene C.;
- Purvine, Samuel;
- Eng, Jimmy K.;
- Haller, Priska von;
- Aebersold, Ruedi;
- Kolker, Eugene;
- Loo, Joseph A.
Publication type:
Article
Comparative Analysis of Secretome Profiles of Manganese(II)-Oxidizing Ascomycete Fungi.
Published in:
PLoS ONE, 2016, v. 11, n. 7, p. 1, doi. 10.1371/journal.pone.0157844
By:
- Zeiner, Carolyn A.;
- Purvine, Samuel O.;
- Zink, Erika M.;
- Paša-Tolić, Ljiljana;
- Chaput, Dominique L.;
- Haridas, Sajeet;
- Wu, Si;
- LaButti, Kurt;
- Grigoriev, Igor V.;
- Henrissat, Bernard;
- Santelli, Cara M.;
- Hansel, Colleen M.
Publication type:
Article
Identifying Aspects of the Post-Transcriptional Program Governing the Proteome of the Green Alga Micromonas pusilla.
Published in:
PLoS ONE, 2016, v. 11, n. 7, p. 1, doi. 10.1371/journal.pone.0155839
By:
- Waltman, Peter H.;
- Guo, Jian;
- Reistetter, Emily Nahas;
- Purvine, Samuel;
- Ansong, Charles K.;
- van Baren, Marijke J.;
- Wong, Chee-Hong;
- Wei, Chia-Lin;
- Smith, Richard D.;
- Callister, Stephen J.;
- Stuart, Joshua M.;
- Worden, Alexandra Z.
Publication type:
Article
DeconMSn: a software tool for accurate parent ion monoisotopic mass determination for tandem mass spectra.
Published in:
Bioinformatics, 2008, v. 24, n. 7, p. 1021, doi. 10.1093/bioinformatics/btn063
By:
- Anoop M. Mayampurath;
- Navdeep Jaitly;
- Samuel O. Purvine;
- Matthew E. Monroe;
- Kenneth J. Auberry;
- Joshua N. Adkins;
- Richard D. Smith
Publication type:
Article
Mechanisms of Manganese(II) Oxidation by Filamentous Ascomycete Fungi Vary With Species and Time as a Function of Secretome Composition.
Published in:
Frontiers in Microbiology, 2021, v. 11, p. N.PAG, doi. 10.3389/fmicb.2021.610497
By:
- Zeiner, Carolyn A.;
- Purvine, Samuel O.;
- Zink, Erika;
- Wu, Si;
- Paša-Tolić, Ljiljana;
- Chaput, Dominique L.;
- Santelli, Cara M.;
- Hansel, Colleen M.
Publication type:
Article
Functional Genomics, Transcriptomics, and Proteomics Reveal Distinct Combat Strategies Between Lineages of Wood-Degrading Fungi With Redundant Wood Decay Mechanisms.
Published in:
Frontiers in Microbiology, 2020, p. N.PAG, doi. 10.3389/fmicb.2020.01646
By:
- Presley, Gerald N.;
- Zhang, Jiwei;
- Purvine, Samuel O.;
- Schilling, Jonathan S.
Publication type:
Article
Iron rescues glucose-mediated photosynthesis repression during lipid accumulation in the green alga Chromochloris zofingiensis.
Published in:
Nature Communications, 2024, v. 15, n. 1, p. 1, doi. 10.1038/s41467-024-50170-x
By:
- Jeffers, Tim L.;
- Purvine, Samuel O.;
- Nicora, Carrie D.;
- McCombs, Ryan;
- Upadhyaya, Shivani;
- Stroumza, Adrien;
- Whang, Ken;
- Gallaher, Sean D.;
- Dohnalkova, Alice;
- Merchant, Sabeeha S.;
- Lipton, Mary;
- Niyogi, Krishna K.;
- Roth, Melissa S.
Publication type:
Article
The Specific Carbohydrate Diet and Diet Modification as Induction Therapy for Pediatric Crohn's Disease: A Randomized Diet Controlled Trial.
Published in:
Nutrients, 2020, v. 12, n. 12, p. 3749, doi. 10.3390/nu12123749
By:
- Suskind, David L.;
- Lee, Dale;
- Kim, Young-Mo;
- Wahbeh, Ghassan;
- Singh, Namita;
- Braly, Kimberly;
- Nuding, Mason;
- Nicora, Carrie D.;
- Purvine, Samuel O.;
- Lipton, Mary S.;
- Jansson, Janet K.;
- Nelson, William C.
Publication type:
Article

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