Pteridomonas danica PT

Downloads:

Reads

Annotations

Peptides

Contigs

CDS

Environmental Data
Principle Investigator(s)	Brian Palenik
External sample ID	PteridomonasWITHSYN
NCGR Sample ID	MMETSP0102
Sample accession number	CAM_SMPL_002394
Assembly accession number	CAM_ASM_000212
Combined Assembly Name	Pteridomonas-danica-PT
Genus	Pteridomonas
Species	danica
Strain	PT
Clonal	Yes
Axenic	No
Prelim. NCBI Taxon ID	38822
18S rRNA	AGCCATGCATGTCTAAGTATAAACGATTCTATACTGTGAACCTGCAGAAGGATCAACCGGTTAGTTTAGTTTATTTGGCATTCCCCGATCAATGGGGTCCCCGTGGCCGTTAACGAGCTAATACGTGCGTCAAGAGACATTCGTCGTGTCGACTTTTAATAAAAACCCATGCGGCTTAAGTCGGAATTGTGGTGAGTCATGTTAATTTCGCCAACTTTATGAATCTGATCCGGCCATGGATCATTCACGTTACTGCCCGGCTCGCTTTGGATGGGAGGGTATTGCCCTACCTGACCTTTTCTCGGCAACGGACAATTGTGGTTCGATTCCGGAGAGGGAGCCTGAGAGACGGCTACCACATCCAAGGAAGGCAGCAGGCGCGTAAATTACCCAATCCTGACTCAGGGAGGTAGTGACAAAAAATAACTTAGTCGAGCCGTTTTCGGTTTGACTTTAGGAATGAGAACAATTTAAATCCCTTATCGAGGATCAATTGGAGGGCAAGTCTGGTGCCAGCAGCCGCGGTAATTCCAGCTCCAATAGCGTATATTAATGTTGTTGCAGTTAAAAAGCTCGTAGTTGGATTTCTGGTCGGGACGTCTGGCCGGCTCCTCAAGGGGTCGTTGCATTGACTGTACTCGTCCATCCTCAGGTTGACTAGCTCTGGTATTTATTTATCGGTGTTAGAACGCCTGTCGTTTACTGTGAACAAATTAGAGTGTTCAAAGCAAGGTGTACTTGAATACATTAGCATGGAATAATAAGATAGGACTTTGGTGGTTCTTTTTAGATATTTTGTTGGTTTGCACGCCAAAGTAATGATTAATAGGAGCAGTTGGGGGTATTCGTATTCAATTGTCAGAGGTGAAATTCTTGGATTTATAGAAGACGAACTACTGCGAAAGCATTTACCAAGGATGTTTTCATTAATCAAGAACGAAAGTTAGGGGATCGAAGAAGATTAGATACCTTCGTAGTCCTAACCATAAACCATGCCGACTCGGGATTGGCGGTCGTTTTTTTTATCGACTCCGTCAGCACCGTATGAGAAATCAAAGTCTTTGGGTTCCGGGGGGAGTATGGTCGCAAGGCTGAAACTTAAAGAAATTGACGGAAGGGCACCACCAGGAGTGGAGCCTGCGGCTTAATTTGACTCAACACGGGGAAACTTACCAGGTCCAGACATAGTAAGGATTGACAGATTGAGAGCTCTTTCTTGATTCTATGGGTGGTGGTGCATGGCCGTTCTTAGTTGGTGGAGTGATTTGTCTGGTTAATTCCGTTAACGAACGAGACCCCCGCCTTACAAAGAGGGCCATTAATGCTTAGCATTGGAGGATCGCTTCTTAGAGGGAATGTATGAGATTATCATACGGAAGTTGGGGGCAATAACAGGTGCCAGATGCCCTTAGAAGGTATAGTCCGCACGCGCGTTACAATGAAAGGGGGTACAAGTTTAGAACATTGGCCGAGAGGCCTGGGTAATCTTTGAGTTCAGCTCGCGATAGGGATAGATTCAAACAATTATTAATAGCGAATGAGGAATTCGTAGTAAACTCAAATCATCAGCTTGCAGAGTTTACTTCCCAGCCCTCCGTACACCCAGCCCGTCGCGCTTACCGATTACAGGTAGGATCCAGCCAGCAGGACCTACGATGTACCTGGTTGATCCTGCCAGTAGTCATACGCTGTCTCAAAGATAAGCCATGCA
Importance of organism and transcriptomes	Pteridomonas species consume bacteria including cyanobacteria and small phytoplankton as prey, and thus are involved in recycling of nutrients through the microbial loop. They have been important model organisms for studying grazer-prey dynamics. Theri biology is not well studied and we could not find a genome project for this group. This isolate was obtained from the SIO pier (UCSD, La Jolla, CA), has been in culture for several years and grows on a single Synechococcus strain and contaminating bacteria as food. It's 18S rRNA sequence is 96% identical to Pteridomonas danica. This species is important for phylogenetic reasons as part of a poorly sampled group the Dictyochophyceae and for ecological reasons. We would hope to compare its transcriptome during growth with and without Synechococcus and to other nanoflagellates growing with and without Synechococcus to better understand the mechanisms of Synechococcus recognition and digestion.
Additional citations and references
Primary citation for organism's characterization, if available	Zwirglmaier, K; Spence, E; Zubkov, MV, et al. 2009. Differential grazing of two heterotrophic nanoflagellates on marine Synechococcus strains. Environmental Microbiology. Volume 11. Issue 7. Pages: 1767-1776
Experimental Data
Date of experiment	15-MAR-11
Growth medium	f/4 amended seawater
Temperature (ºC)	20
Salinty (psu)	34
pH	8
Light (µmol photons / m2 / sec)	20
Day portion of day:night cycle in hours	24
Nitrate (μmol/L)	441.23
Phosphate (μmol/L)	18.15
Trace elements (total) (nmol/L)	12.25
Prey organism, if applicable (genus and species)	Synechococcus CC9311