TABLE 1.
PCR primers and conditions used in QPCR analysis of PR, pufM, and 16S rRNA gene abundances
| Gene | Group | Target region | Primer name | Primer sequence (5′-3′) | Annealing temp (°C) | Reference |
|---|---|---|---|---|---|---|
| 16S rRNA gene | Bacteria | 1369-1541a | BACT1369F | CGGTGAATACGTTCYCGG | 58 | 47 |
| PROK1541R | AAGGAGGTGATCCRGCCGCA | |||||
| PR gene | Summer clade | 472-567b | PRS472F | ATCGTAGGCATGGTAGGC | 55 | This study |
| PRS567R | CTTGACAGATTCTGGAGC | |||||
| Winter clade | 460-562b | PRW460F | ACCGTGGCCTTCATCATT | 60 | This study | |
| PRW562R | CTGATGGGGGTGCGCTTT | |||||
| pufM | Summer clade | 657-760c | pufMS621F | CATGCATGGTGCCACGAT | 55 | This study |
| pufMS724R | AGAAGAGAGCGGCACGTT | |||||
| Winter clade | 562-641c | pufMW526F | ACGTCGGCCATCTCCCTG | 55 | This study | |
| pufMW622R | TGGCAAACAGCAGCACAG |
a
Nucleotide positions in the E. coli 16S rRNA gene.
b
Nucleotide positions in the Pelagibacter ubique PR gene.
c
Nucleotide positions in the Roseobacter sp. strain SO3 (GenBank accession no. AY675566) pufM gene.