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Items: 29

1.

Strong Purifying Selection Is Associated with Genome Streamlining in Epipelagic Marinimicrobia.

Martinez-Gutierrez CA, Aylward FO.

Genome Biol Evol. 2019 Oct 1;11(10):2887-2894. doi: 10.1093/gbe/evz201.

2.

Diel transcriptional response of a California Current plankton microbiome to light, low iron, and enduring viral infection.

Kolody BC, McCrow JP, Allen LZ, Aylward FO, Fontanez KM, Moustafa A, Moniruzzaman M, Chavez FP, Scholin CA, Allen EE, Worden AZ, Delong EF, Allen AE.

ISME J. 2019 Nov;13(11):2817-2833. doi: 10.1038/s41396-019-0472-2. Epub 2019 Jul 18.

3.

Parallel Evolution of Genome Streamlining and Cellular Bioenergetics across the Marine Radiation of a Bacterial Phylum.

Getz EW, Tithi SS, Zhang L, Aylward FO.

MBio. 2018 Sep 18;9(5). pii: e01089-18. doi: 10.1128/mBio.01089-18.

4.

Periodic and coordinated gene expression between a diazotroph and its diatom host.

Harke MJ, Frischkorn KR, Haley ST, Aylward FO, Zehr JP, Dyhrman ST.

ISME J. 2019 Jan;13(1):118-131. doi: 10.1038/s41396-018-0262-2. Epub 2018 Aug 16.

PMID:
30116042
5.

FastViromeExplorer: a pipeline for virus and phage identification and abundance profiling in metagenomics data.

Tithi SS, Aylward FO, Jensen RV, Zhang L.

PeerJ. 2018 Jan 12;6:e4227. doi: 10.7717/peerj.4227. eCollection 2018.

6.

Bacteriophage Distributions and Temporal Variability in the Ocean's Interior.

Luo E, Aylward FO, Mende DR, DeLong EF.

MBio. 2017 Nov 28;8(6). pii: e01903-17. doi: 10.1128/mBio.01903-17.

7.

Diel cycling and long-term persistence of viruses in the ocean's euphotic zone.

Aylward FO, Boeuf D, Mende DR, Wood-Charlson EM, Vislova A, Eppley JM, Romano AE, DeLong EF.

Proc Natl Acad Sci U S A. 2017 Oct 24;114(43):11446-11451. doi: 10.1073/pnas.1714821114. Epub 2017 Oct 11.

8.

Environmental drivers of a microbial genomic transition zone in the ocean's interior.

Mende DR, Bryant JA, Aylward FO, Eppley JM, Nielsen T, Karl DM, DeLong EF.

Nat Microbiol. 2017 Oct;2(10):1367-1373. doi: 10.1038/s41564-017-0008-3. Epub 2017 Aug 14.

PMID:
28808230
9.

Coordinated regulation of growth, activity and transcription in natural populations of the unicellular nitrogen-fixing cyanobacterium Crocosphaera.

Wilson ST, Aylward FO, Ribalet F, Barone B, Casey JR, Connell PE, Eppley JM, Ferrón S, Fitzsimmons JN, Hayes CT, Romano AE, Turk-Kubo KA, Vislova A, Armbrust EV, Caron DA, Church MJ, Zehr JP, Karl DM, DeLong EF.

Nat Microbiol. 2017 Jul 31;2:17118. doi: 10.1038/nmicrobiol.2017.118.

PMID:
28758990
10.

Major changes in microbial diversity and community composition across gut sections of a juvenile Panchlora cockroach.

Gontang EA, Aylward FO, Carlos C, Glavina Del Rio T, Chovatia M, Fern A, Lo CC, Malfatti SA, Tringe SG, Currie CR, Kolter R.

PLoS One. 2017 May 18;12(5):e0177189. doi: 10.1371/journal.pone.0177189. eCollection 2017.

11.

Improved Environmental Genomes via Integration of Metagenomic and Single-Cell Assemblies.

Mende DR, Aylward FO, Eppley JM, Nielsen TN, DeLong EF.

Front Microbiol. 2016 Feb 11;7:143. doi: 10.3389/fmicb.2016.00143. eCollection 2016.

12.

Wind and sunlight shape microbial diversity in surface waters of the North Pacific Subtropical Gyre.

Bryant JA, Aylward FO, Eppley JM, Karl DM, Church MJ, DeLong EF.

ISME J. 2016 Jun;10(6):1308-22. doi: 10.1038/ismej.2015.221. Epub 2015 Dec 8.

13.

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.

Aylward FO, Khadempour L, Tremmel DM, McDonald BR, Nicora CD, Wu S, Moore RJ, Orton DJ, Monroe ME, Piehowski PD, Purvine SO, Smith RD, Lipton MS, Burnum-Johnson KE, Currie CR.

PLoS One. 2015 Sep 23;10(9):e0139151. doi: 10.1371/journal.pone.0139151. eCollection 2015. No abstract available.

14.

Enrichment and Broad Representation of Plant Biomass-Degrading Enzymes in the Specialized Hyphal Swellings of Leucoagaricus gongylophorus, the Fungal Symbiont of Leaf-Cutter Ants.

Aylward FO, Khadempour L, Tremmel DM, McDonald BR, Nicora CD, Wu S, Moore RJ, Orton DJ, Monroe ME, Piehowski PD, Purvine SO, Smith RD, Lipton MS, Burnum-Johnson KE, Currie CR.

PLoS One. 2015 Aug 28;10(8):e0134752. doi: 10.1371/journal.pone.0134752. eCollection 2015. Erratum in: PLoS One. 2015;10(9):e0139151.

15.

Phylogenomic analysis and predicted physiological role of the proton-translocating NADH:quinone oxidoreductase (complex I) across bacteria.

Spero MA, Aylward FO, Currie CR, Donohue TJ.

MBio. 2015 Apr 14;6(2). pii: e00389-15. doi: 10.1128/mBio.00389-15.

16.

Microbial community transcriptional networks are conserved in three domains at ocean basin scales.

Aylward FO, Eppley JM, Smith JM, Chavez FP, Scholin CA, DeLong EF.

Proc Natl Acad Sci U S A. 2015 Apr 28;112(17):5443-8. doi: 10.1073/pnas.1502883112. Epub 2015 Mar 9.

17.

Convergent bacterial microbiotas in the fungal agricultural systems of insects.

Aylward FO, Suen G, Biedermann PH, Adams AS, Scott JJ, Malfatti SA, Glavina del Rio T, Tringe SG, Poulsen M, Raffa KF, Klepzig KD, Currie CR.

MBio. 2014 Nov 18;5(6):e02077. doi: 10.1128/mBio.02077-14.

18.

The fungus gardens of leaf-cutter ants undergo a distinct physiological transition during biomass degradation.

Huang EL, Aylward FO, Kim YM, Webb-Robertson BJ, Nicora CD, Hu Z, Metz TO, Lipton MS, Smith RD, Currie CR, Burnum-Johnson KE.

Environ Microbiol Rep. 2014 Aug;6(4):389-95. doi: 10.1111/1758-2229.12163. Epub 2014 Apr 27.

PMID:
24992538
19.

Leucoagaricus gongylophorus produces diverse enzymes for the degradation of recalcitrant plant polymers in leaf-cutter ant fungus gardens.

Aylward FO, Burnum-Johnson KE, Tringe SG, Teiling C, Tremmel DM, Moeller JA, Scott JJ, Barry KW, Piehowski PD, Nicora CD, Malfatti SA, Monroe ME, Purvine SO, Goodwin LA, Smith RD, Weinstock GM, Gerardo NM, Suen G, Lipton MS, Currie CR.

Appl Environ Microbiol. 2013 Jun;79(12):3770-8. doi: 10.1128/AEM.03833-12. Epub 2013 Apr 12.

20.

Comparison of 26 sphingomonad genomes reveals diverse environmental adaptations and biodegradative capabilities.

Aylward FO, McDonald BR, Adams SM, Valenzuela A, Schmidt RA, Goodwin LA, Woyke T, Currie CR, Suen G, Poulsen M.

Appl Environ Microbiol. 2013 Jun;79(12):3724-33. doi: 10.1128/AEM.00518-13. Epub 2013 Apr 5.

21.

Mountain pine beetles colonizing historical and naive host trees are associated with a bacterial community highly enriched in genes contributing to terpene metabolism.

Adams AS, Aylward FO, Adams SM, Erbilgin N, Aukema BH, Currie CR, Suen G, Raffa KF.

Appl Environ Microbiol. 2013 Jun;79(11):3468-75. doi: 10.1128/AEM.00068-13. Epub 2013 Mar 29.

22.

Complete Genome of Serratia sp. Strain FGI 94, a Strain Associated with Leaf-Cutter Ant Fungus Gardens.

Aylward FO, Tremmel DM, Starrett GJ, Bruce DC, Chain P, Chen A, Davenport KW, Detter C, Han CS, Han J, Huntemann M, Ivanova NN, Kyrpides NC, Markowitz V, Mavrommatis K, Nolan M, Pagani I, Pati A, Pitluck S, Teshima H, Deshpande S, Goodwin L, Woyke T, Currie CR.

Genome Announc. 2013 Mar 14;1(2):e0023912. doi: 10.1128/genomeA.00239-12.

23.

Complete Genome of Enterobacteriaceae Bacterium Strain FGI 57, a Strain Associated with Leaf-Cutter Ant Fungus Gardens.

Aylward FO, Tremmel DM, Bruce DC, Chain P, Chen A, Walston Davenport K, Detter C, Han CS, Han J, Huntemann M, Ivanova NN, Kyrpides NC, Markowitz V, Mavrommatis K, Nolan M, Pagani I, Pati A, Pitluck S, Deshpande S, Goodwin L, Woyke T, Currie CR.

Genome Announc. 2013 Jan;1(1). pii: e00238-12. doi: 10.1128/genomeA.00238-12. Epub 2013 Feb 21.

24.

The genome sequences of Cellulomonas fimi and "Cellvibrio gilvus" reveal the cellulolytic strategies of two facultative anaerobes, transfer of "Cellvibrio gilvus" to the genus Cellulomonas, and proposal of Cellulomonas gilvus sp. nov.

Christopherson MR, Suen G, Bramhacharya S, Jewell KA, Aylward FO, Mead D, Brumm PJ.

PLoS One. 2013;8(1):e53954. doi: 10.1371/journal.pone.0053954. Epub 2013 Jan 14.

25.

Metagenomic and metaproteomic insights into bacterial communities in leaf-cutter ant fungus gardens.

Aylward FO, Burnum KE, Scott JJ, Suen G, Tringe SG, Adams SM, Barry KW, Nicora CD, Piehowski PD, Purvine SO, Starrett GJ, Goodwin LA, Smith RD, Lipton MS, Currie CR.

ISME J. 2012 Sep;6(9):1688-701. doi: 10.1038/ismej.2012.10. Epub 2012 Mar 1.

26.

The Evolutionary Innovation of Nutritional Symbioses in Leaf-Cutter Ants.

Aylward FO, Currie CR, Suen G.

Insects. 2012 Jan 6;3(1):41-61. doi: 10.3390/insects3010041. Review.

27.

The complete genome sequence of Fibrobacter succinogenes S85 reveals a cellulolytic and metabolic specialist.

Suen G, Weimer PJ, Stevenson DM, Aylward FO, Boyum J, Deneke J, Drinkwater C, Ivanova NN, Mikhailova N, Chertkov O, Goodwin LA, Currie CR, Mead D, Brumm PJ.

PLoS One. 2011 Apr 19;6(4):e18814. doi: 10.1371/journal.pone.0018814.

28.

An insect herbivore microbiome with high plant biomass-degrading capacity.

Suen G, Scott JJ, Aylward FO, Adams SM, Tringe SG, Pinto-Tomás AA, Foster CE, Pauly M, Weimer PJ, Barry KW, Goodwin LA, Bouffard P, Li L, Osterberger J, Harkins TT, Slater SC, Donohue TJ, Currie CR.

PLoS Genet. 2010 Sep 23;6(9):e1001129. doi: 10.1371/journal.pgen.1001129.

29.

Triassic origin and early radiation of multicellular volvocine algae.

Herron MD, Hackett JD, Aylward FO, Michod RE.

Proc Natl Acad Sci U S A. 2009 Mar 3;106(9):3254-8. doi: 10.1073/pnas.0811205106. Epub 2009 Feb 17.

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