D
David A. Mills
Researcher at University of California, Davis
Publications - 272
Citations - 26684
David A. Mills is an academic researcher from University of California, Davis. The author has contributed to research in topics: Bifidobacterium longum & Bifidobacterium. The author has an hindex of 75, co-authored 262 publications receiving 21784 citations. Previous affiliations of David A. Mills include University of California & North Carolina State University.
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Journal ArticleDOI
Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing.
Nicholas A. Bokulich,Sathish Subramanian,Jeremiah J. Faith,Dirk Gevers,Jeffrey I. Gordon,Rob Knight,Rob Knight,David A. Mills,J. Gregory Caporaso,J. Gregory Caporaso +9 more
TL;DR: It is demonstrated that high-quality read length and abundance are the primary factors differentiating correct from erroneous reads produced by Illumina GAIIx, HiSeq and MiSeq instruments.
Journal ArticleDOI
Comparative genomics of the lactic acid bacteria
Kira S. Makarova,Alexei I. Slesarev,Yuri I. Wolf,Alexander V. Sorokin,Boris Mirkin,Eugene V. Koonin,Andrey R. Pavlov,Nadezhda Pavlova,Valeri N. Karamychev,N. N. Polouchine,V. V. Shakhova,Igor V. Grigoriev,Yunian Lou,D. Rohksar,Susan Lucas,Katherine H. Huang,David Goodstein,Trevor Hawkins,V. Plengvidhya,V. Plengvidhya,Dennis L. Welker,Joanne E. Hughes,Yong Jun Goh,Andrew K. Benson,K. A. Baldwin,Ju-Hoon Lee,I. Diaz-Muniz,B. Dosti,Vladimir V. Smeianov,W. Wechter,Ravi D. Barabote,Graciela L. Lorca,Eric Altermann,Rodolphe Barrangou,Balasubramanian Ganesan,Y. Xie,Helen Rawsthorne,Diana I. Tamir,C. Parker,Frederick Breidt,Frederick Breidt,Jeffery R. Broadbent,Robert W. Hutkins,Daniel J. O'Sullivan,J. L. Steele,Gülhan Ünlü,Milton H. Saier,Todd R. Klaenhammer,Paul G. Richardson,Sergei A. Kozyavkin,Bart C. Weimer,David A. Mills +51 more
TL;DR: Phylogenetic analyses, comparison of gene content across the group, and reconstruction of ancestral gene sets indicate a combination of extensive gene loss and key gene acquisitions via horizontal gene transfer during the coevolution of lactic acid bacteria with their habitats.
Journal ArticleDOI
The genome sequence of Bifidobacterium longum subsp. infantis reveals adaptations for milk utilization within the infant microbiome.
David A. Sela,Jarrod Chapman,A. Adeuya,Jaehan Kim,Fang Chen,T. R. Whitehead,Alla Lapidus,Daniel S. Rokhsar,Carlito B. Lebrilla,German John Bruce,Neil P. J. Price,Paul G. Richardson,David A. Mills +12 more
TL;DR: An examination of in vivo metabolism has detected the hallmarks of milk oligosaccharide utilization via the central fermentative pathway using metabolomic and proteomic approaches and conservation of gene clusters in multiple isolates corroborates the genomic mechanism underlying milk utilization for this infant-associated phylotype.
Journal ArticleDOI
Microbial biogeography of wine grapes is conditioned by cultivar, vintage, and climate
TL;DR: It is demonstrated that grape-associated microbial biogeography is nonrandomly associated with regional, varietal, and climatic factors across multiscale viticultural zones, posing the existence of nonrandom “microbial terroir” as a determining factor in regional variation among wine grapes.
Journal ArticleDOI
The Soil Microbiome Influences Grapevine-Associated Microbiota
Iratxe Zarraonaindia,Iratxe Zarraonaindia,Sarah M. Owens,Sarah M. Owens,Pamela Weisenhorn,Kristin West,Jarrad T. Hampton-Marcell,Jarrad T. Hampton-Marcell,Simon Lax,Nicholas A. Bokulich,David A. Mills,Gilles Martin,Safiyh Taghavi,Daniel van der Lelie,Jack A. Gilbert +14 more
TL;DR: It is shown that soil serves as a key source of vine-associated bacteria and that edaphic factors and vineyard-specific properties can influence the native grapevine microbiome preharvest.