Paraphysomonas Imperforata PA2

Downloads:

Reads

Annotations

Peptides

Contigs

CDS

Environmental Data
Principle Investigator(s)	Brian Palenik
External sample ID	ParaphysomonasNOSYN
NCGR Sample ID	MMETSP0103
Sample accession number	CAM_SMPL_002383
Assembly accession number	CAM_ASM_000201
Combined Assembly Name	Paraphysomonas-imperforata-PA2
Genus	Paraphysomonas
Species	Imperforata
Strain	PA2
Clonal	Yes
Axenic	No
Prelim. NCBI Taxon ID	37642
18S rRNA	CTACGGAAACCTTGTTACGACTTCACCTTCCTCTAAATGATGAGGTTTAAACAACTTTCCACAGCCTGGTTGCCCGAAGGCATCCAAGCCGCAGTCCGAGATTTTCACCGAACCATTCAATCGGTAGGTGCGACGGGCGGTGTGTACAAAGGGCAGGGACGTAATCAACGCGAGCTGATGACTCGCATTTACTAGGAATTCCTCGTTCAAGATTCAGAATTGCAAAAATCTATCCCTAGTACGATACACATTTACAAGATTACCCGGACCTTTCGGACAAGGTGGACTCGTTGCGTGTATCATTGTAGCGCGCGTGCGGCCCAGGACATCTAAGGGCATCACAGACCTGTTATTGCCCCCAACTTCCTTTGGTTAGTCACCAAAAGTCCCTCTAAGAAGTTGACGCCAATGCGAGGCATTCGCTCAACTATTTAGCAGGCGGGGGTCTCGTTCGTTAACGGAATTAACCAGACAAATCACTCCACCAACTAAGAACGGCCATGCACCACCACCCATAGAATCAAGAAAGAGCTCTCAATCTGTCAATCCTCACTATGTCTGGACCTGGTAAGTTTTCCCGTGTTGAGTCAAATTAAGCCGCAGGCTCCACTCCTGGTGGTGCCCTTCCGTCAATTTCTTTAAGTTTCAGCCTTGCGACCATACTCCCCCCGGAACCCAAAGACTTTGATTTCTCATAAGGTGCTGATGGAGTCGTAACAAACGTCCACCAATCCCTAGTCGGCATAGTTTATGGTTAAGACTACGATGGTATCTAATCATCTTCGATCCCCTAACTTTCGTTCTTGATTAATGAAAACATCCTTGGTAAATGCTTTCGCAGTAGTTCGTCTTCCATAAATCCAAGAATTTCACCTCTGACAATTGAATACGAATACCCCCAACTATCCCTATTAATCATTACCTTGGAATGCAAACCAACAAAATAGACCAAGGTCCTATCTTATTATTCCATGCTAATGTATTCAACGGCCTAAGCCTGCTTTGAACACTCTATTTTGCTCACAGTAAATGACGAGGATCCCGCGCCCGACAACTGAATGCCAGACGCGCTCTCCCCGAGGATGGACGCAGAGACCAGGTGCACACCCCGTGAGGGGCGGACCGGTCGCCACGACCAGAAATTCAACTACGAGCTTTTTAACTGCAACAACTTTAGTATACGCTATTGGAGCTGGAATTACCGCGGCTGCTGGCACCAGACTTGCCCTCCAATTGATCCTCGATAAGGGATTTAAATTGTTCTCATTCCAATTGCCAGACTTAAAAAAGCCCGGCATTGTTATTTATTGTCACTACCTCCCTGTGTCAGGATTGGGTAATTTACGCGCCTGCTGCCTTCCTTGGATGTGGTAGCCGTTTCTCAGGCTCCCTCTCCGGAATCGAACCCTAATTCTCCGTTACCCGTTAAAGCCATGGTAGGCCAATACCCTACCATCCAAAGCTGATAGGGCAGAAACTTGAATGATGCATCGATCCGAAGATCGATCCGAAAGTTATTATGAATCACCTGAATCCGGGTTGCCCCGCATTGGTTTCCATCTAATAAATACACCTCTTCCAAGAAAGTCGAGGTTTGACGCATGTATTAGCTCTAGAATTACTACGGTTATCCAAGTAGCAAGAACCATCAAATAAACTATAACTGATATAATGAGCCATTCGCAGTTTCACAGTATAGATTTGTTTATACTTAGACATGCATGGCTTAATCTTTGAGACAAGCGTATGCTA
Importance of organism and transcriptomes	Paraphysomonas species consume bacteria including cyanobacteria and small phytoplankton as prey, and thus are involved in recycling of nutrients trhough the microbial loop. They have been important model organisms for studying grazer-prey dynamics and are ubiquitous in marine environments, althhough at relatively low numbers. They may be higly responsive to bloom conditions. This isolate was obtained from the SIO pier (UCSD, La Jolla, CA) during a Synechococcus bloom, has been in culture for several years and grows on a single Synechococcus strain and contaminating bacteria as food. This species is important for phylogenetic reasons as part of a poorly sampled group 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	EL Lim, Mark R. Dennett, David A. Caron (1999) The Ecology of Paraphysomonas imperforata Based on Studies Employing Oligonucleotide Probe Identification in Coastal Water Samples and Enrichment Cultures Limnology and Oceanography Vol. 44: 37-51.
Primary citation for organism's characterization, if available	Caron DA, Lim EL, Dennett MR, Gast RJ, Kosman C, DeLong EF (1999) Molecular phylogenetic analysis of the heterotrophic chrysophyte genus Paraphysomonas (Chrysophyceae), and the design of rRNA-targeted oligonucleotide probes for two species. J. Phycol. 35 (4), 824-837 (1999)
Experimental Data
Date of experiment	16-MAY-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)	Unknown bacteria