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Adina Howe
Researcher at Iowa State University
Publications - 80
Citations - 4060
Adina Howe is an academic researcher from Iowa State University. The author has contributed to research in topics: Biology & Metagenomics. The author has an hindex of 20, co-authored 66 publications receiving 3027 citations. Previous affiliations of Adina Howe include New York Academy of Sciences & University of Illinois at Urbana–Champaign.
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Journal ArticleDOI
Revealing the Bacterial Butyrate Synthesis Pathways by Analyzing (Meta)genomic Data
TL;DR: A complete database of genes from major known butyrate-producing pathways is provided, using in-depth genomic analysis of publicly available genomes, filling an important gap to accurately assess the butyrATE-producing potential of complex microbial communities from “-omics”-derived data.
Journal ArticleDOI
The khmer software package: enabling efficient nucleotide sequence analysis.
Michael R. Crusoe,Hussien F. Alameldin,Sherine Awad,Elmar Boucher,Adam Caldwell,Reed A. Cartwright,Amanda Charbonneau,Bede Constantinides,Greg Edvenson,Scott Fay,Jacob Fenton,Thomas Fenzl,Jordan A. Fish,Leonor Garcia-Gutierrez,Phillip Garland,Jonathan Gluck,Ivan Gonzalez,Sarah Guermond,Jiarong Guo,Aditi Gupta,Joshua R. Herr,Adina Howe,Alex Hyer,Andreas Härpfer,Luiz Irber,Rhys Kidd,David Lin,Justin Lippi,Tamer A. Mansour,Pamela McA'Nulty,Eric McDonald,Jessica E. Mizzi,Kevin D Murray,Joshua R. Nahum,Kaben G. Nanlohy,Alexander J. Nederbragt,Humberto Ortiz-Zuazaga,Jeramia Ory,Jason Pell,Charles Pepe-Ranney,Zachary N. Russ,Erich M. Schwarz,Camille Scott,Josiah Seaman,Scott Sievert,Jared T. Simpson,Connor T. Skennerton,James S. Spencer,Ramakrishnan Srinivasan,Daniel S. Standage,James A. Stapleton,Susan R. Steinman,Joe Stein,Benjamin R Taylor,Will Trimble,Heather L. Wiencko,Michael Wright,Brian Wyss,Qingpeng Zhang,en zyme,C. Titus Brown +60 more
TL;DR: Khmer as discussed by the authors is a free software library for working efficiently with fixed length DNA words, or k-mers, which provides implementations of a probabilistic k-mer counting data structure, a compressible De Bruijn graph representation, De Bruhen graph partitioning, and digital normalization.
Journal ArticleDOI
Tackling soil diversity with the assembly of large, complex metagenomes
Adina Howe,Janet K. Jansson,Janet K. Jansson,Stephanie Malfatti,Susannah G. Tringe,James M. Tiedje,C. Titus Brown +6 more
TL;DR: This work combines two preassembly filtering approaches—digital normalization and partitioning—to generate previously intractable large metagenome assemblies, which result in assemblies nearly identical to assemblies from unprocessed data.
Journal ArticleDOI
Microbial activity in forest soil reflects the changes in ecosystem properties between summer and winter
TL;DR: The activity of the abundant ectomycorrhizal fungi was reduced in winter, which indicates that plant photosynthetic production was likely one of the major drivers of changes in the functioning of microbial communities in this coniferous forest.
Posted Content
A Reference-Free Algorithm for Computational Normalization of Shotgun Sequencing Data
TL;DR: Digital normalization is described, a single-pass computational algorithm that systematizes coverage in shotgun sequencing data sets, thereby decreasing sampling variation, discarding redundant data, and removing the majority of errors.