Table 3.

Summary of cells and sequence groups in IODP Expedition 327 samples, including density of cells per cubic centimeter of sample as measured using acridine orange (AODC) and propidium iodide (PI) staining methods, the concentration of bacterial and archaeal 16S rRNA genes per gram sample, the number of sequences that passed initial quality control (QC seqs), the number of predicted operational taxonomic units at the 97% or greater sequence similarity threshold (# OTUs), and the number of OTUs in each sample after screening for potential contamination (# OTUs-control).

Core	Cells cm-3 AODC	Cells cm-3 PI	Bacteria 16Sb (copies/g)	Archaea 16Sc (copies/g)	QC seqsd	# OTUse	# OTUs-control
U1363F-4H1∗	5 ± 3 × 106	5 ± 2 × 107	3.1 × 105	2.3 × 104	4,547	128	115
U1363F-4H2	4 ± 3 × 106	5 ± 1 × 107	2.4 × 105	8.6 × 103	15,582	257	239
U1363F-4H3∗	3 ± 3 × 106	5 ± 3 × 107	8.4 × 105	2.7 × 104	7,086	100	93
U1363F-4HCC	n.m.a	n.m.	1.4 × 107	6.4 × 102	15,479	10	3
U1363B-8X2	4 ± 3 × 106	1 ± 0.4 × 108	2.2 × 105	2.9 × 103	12,882	185	169
U1363B-8X5	6 ± 4 × 106	4 ± 2 × 107	4.9 × 103	1.3 × 102	10,634	89	65
U1363D-5X1	2 ± 2 × 106	9 ± 4 × 107	4.2 × 103	3.1 × 103	11,837	119	96
U1363D-6XCC	n.m.	n.m.	6.9 × 105	3.0 × 103	11,344	21	6
U1362A-16R2	n.m.	n.m.	1.1 × 106	2.3 × 103	9,081	24	10
U1362A-21R1A	n.m.	n.m.	1.1 × 106	ND	9,057	24	11
U1362A-21R1B	n.m.	n.m.	1.4 × 106	2.3 × 103	8,232	21	3
U1362A-JdF control	n.m.	n.m.	5.8 × 106	6.4 × 104	3,732	164	116f

^an.m., not measured.

^bConcentration of bacterial 16S rRNA genes determined via QPCR with the Bac8Fmod-Bac338Rabc primer pair.

^cConcentration of archaeal 16S rRNA genes determined via QPCR with the Arc915Fmod-Arc1059mod primer pair.

^dNumber of sequences longer than 250 bp after trimming based on quality scores.

^eNumber of OTUs represented by >5 tags in total.

^fNumber of OTUs found only in the JdF control sample.

^∗Amplification with both Bacteria and Archaea primers.