Table 3 |
||||
|
Unique reference genes shared between and unique to DNA and RNA datasets |
||||
|
Reference genes present ina |
||||
|
|
||||
|
Depth (m) |
DNA+RNAb |
DNA onlyc |
RNA only |
|
|
|
||||
|
OMZ |
50 |
11,374 |
113,747 |
21,445 |
|
85 |
5801 |
172,055 |
6766 |
|
|
110 |
17,843 |
109,924 |
31,697 |
|
|
200 |
12,688 |
126,574 |
17,408 |
|
|
BATS 216 |
20 |
29,841 |
90,866 |
60,287 |
|
50 |
26,954 |
110,131 |
38,145 |
|
|
100 |
31,416 |
119,795 |
36,871 |
|
|
HOT 186 |
25 |
28,459 |
135,390 |
44,243 |
|
75 |
18,098 |
142,892 |
21,800 |
|
|
110 |
12,148 |
125,882 |
12,315 |
|
|
500 |
14,345 |
248,534 |
13,573 |
|
|
Soil |
Surface |
104,453 |
283,180 |
107,475 |
|
|
||||
|
aNumber of unique NCBI-nr reference genes (accession numbers) identified as top matches to query reads via BLASTX (bit score > 50); in instances when a read matched multiple genes with equal bit scores, all genes were counted. bGenes present in both DNA and RNA datasets, that is, 'expressed' genes. cGenes present only in the DNA dataset, that is, 'non-expressed' genes. BATS, Bermuda Atlantic Time Series; BLAST, Basic Local Alignment Search Tool; HOT, Hawaii Ocean Time Series; NCBI-nr, National Center for Biotechnology Information non-redundant protein database; OMZ, oxygen minimum zone. |
||||
|
Stewart et al. Genome Biology 2011 12:R26 doi:10.1186/gb-2011-12-3-r26 |
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