Metabolic reprogramming by viruses in the sunlit and dark ocean

Table 1 Pacific Ocean Virome viral samples used in searching for carbon metabolism genes ^a

Sample	16S + carbon metabolism genes in the same bacterial order	16S hits mostly toa single bacterial species	16S hits to many bacterial species	Random read recruitment to top bacterial genomes	Cellular contamination?	Reads, n
Aphotic
L.Win.O.1000m^b	No	No	No	No	None	147,537
L.Win.O.2000m^b	No	No	No	No	None	125,896
L.Spr.C.500m^b	No	No	No	No	None	136,876
L.Spr.C.1300m^b	No	No	No	No	None	98,478
L.Spr.I.1000m^b	No	No	No	No	None	122,565
L.Spr.I.2000m^b	No	No	No	No	None	49,914
L.Sum.O.1000m^b	No	No	No	No	None	70,596
L.Spr.O.1000m^b	No	No	No	No	None	101,179
L.Win.O.500m^b	No	No	No	No	None	167,616
M.Fall.O.4300m^b	No	No	No	No	None	144,588
L.Spr.C.1000m	Yes	Yes	No	Yes	High GTA^c	97,126
L.Spr.I.500m	Yes	Yes	No	Yes	Low GTA^d	58,108
L.Sum.O.500m	Yes	Yes	No	No	Low GTA^d	42,118
L.Sum.O.2000m	Yes	No	No	No	Low GTA^d	68,516
L.Spr.O.2000m	No	No	Yes	No	Low sporadic	55,332
M.Fall.O.1000m	No	No	No	Yes	Low GTA^d	225,833
Photic
L.Sum.O.10m^b	No	No	No	No	None	165,256
L.Spr.C.10m^b	No	No	No	No	None	107,244
L.Spr.I.10m^b	No	No	No	No	None	92,415
L.Win.O.10m^b	No	No	No	No	None	192,685
M.Fall.C.10m^b	No	No	No	No	None	303,519
M.Fall.I.10m^b	No	No	No	No	None	321,754
M.Fall.O.10m^b	No	No	No	No	None	203,238
M.Fall.O.105m^b	No	No	No	No	None	156,509
SFC.Spr.C.5m^b	No	No	No	No	None	487,339
SFD.Spr.C.5m^b	No	No	No	No	None	645,463
SFS.Spr.C.5m^b	No	No	No	No	None	504,826
STC.Spr.C.5m^b	No	No	No	No	None	821,404
GD.Spr.C.8m	Yes	Yes	No	Yes	Low GTA^d	116,855
GF.Spr.C.9m	Yes	Yes	No	Yes	Low GTA^d	82,739
L.Spr.O.10m	Yes	Yes	No	Yes	Low GTA^d	75,036
M.Fall.I.42m	Yes	Yes	No	Yes	Low GTA^d	31,528

^aSamples were evaluated for gene transfer agents (GTAs) and sporadic contamination (see Results, section on ‘Ruling out bacterial contamination’) based on 16S analysis.
^bOnly samples indicated as having no contamination were used in the analysis.
^c,dHigh GTAs are described as viromes with greater than 100 hits to a single bacterial species, low GTAs have less than 50 hits as determined by analysis (see Additional file 2: Figure S2).
^bSample metadata are further described by Hurwitz and Sullivan [21].

ISSN: 1474-760X