TABLE 1.

Gene prediction methods used in metagenomic projects

Project	Institution(s)	Gene prediction method	Reference
Acid mine drainage biofilm communities from Richmond mine	University of California, Berkeley, JGI	fgenesb	138
Aquatic microbial communities from Drinking water networks	University of Goettingen	BLAST	120
Aquatic microbial communities from Soudan Mine in Minnesota	San Diego State University	BLAST	36
Fossil microbial community from Whale Fall at Santa Cruz Basin of the Pacific Ocean	JGI	fgenesb	135
Gut microbiome of healthy human adults	J. Craig Venter Institute, Washington University, Stanford University	BLAST	50
Gut microbiome of healthy human Japanese infants and adults	University of Tokyo	Metagene	77
Gut microbiome of lean and obese mice	Washington University	BLAST	136
Gut viriome of healthy human adults	Genome Institute of Singapore	BLAST	152
Marine archaeal anaerobic methane oxidation communities from Eel River sediments	JGI, MBARI	fgenesB	57
Marine microbial communities from Bras del Port saltern in Santa Pola, Spain, crystallizer pond	Universitas Miguel Hernandez	GLIMMER	80
Marine microbial communities from Global Ocean Sampling	J. Craig Venter Institute	Similarity searches and filtering of ORFs	115
Marine microbial communities from Sargasso Sea	J. Craig Venter Institute	BLAST	140
Marine plankton communities from deep Mediterranean Sea Ionian station Km3	Universitas Miguel Hernandez	BLAST	93
Marine planktonic communities from Hawaii Ocean Times Series Station	JGI	BLAST	33
Marine RNA viral communities from coastal samples	University of British Columbia	BLAST	27
Marine viral communities from ocean environments	SDSU	BLAST	9
Olavius algarvensis (gutless worm) microbiome from Mediterranean Sea	Max Planck Institute, JGI	mORFind	150
Oral TM7 microbial communities of healthy human adults	JGI, Stanford University	fgenesb	88
Soil microbial communities from Minnesota farm	JGI	fgenesb	134
Wastewater EBPR microbial communities from bioreactor	JGI	fgenesb	47