Project Information
- 170308 Klebsormidium flaccidum NIES-2285 was re-identified as Klebsormidium nitens NIES-2285, 2016 Jun
- 140528 Klebsormidium flaccidum genome V1.0 released
Sequence data have been deposited in GenBank/EMBL/DDBJ Accession number: DF236950-DF238763 (1814 entries)
BioProject ID: PRJDB718
Release Information
- 171026 V1.1 General feature format file was revised (add missing mRNA and exon features of 43 genes).
- 170308 Klebsormidium nitens NIES-2285 V 1.1 General feature format release (DOWNLOAD)
- 160619 Klebsormidium nitens transcripts V1.1 released (DOWNLOAD)
- 140528 Klebsormidium nitens genome V1.0 released (DOWNLOAD)
(K. flaccidum NIES-2285 was re-identified as K. nitens NIES-2285, 2016 Jun)
Introduction
- Klebsormidium nitens NIES-2145 The charophytic algae Klebsormidium nitens strain NIES-2285 (formerly identified as K. flaccidum) usually consist of multicellular and non-branching filaments without differentiated or specialised cells.
Each cell has a large chloroplast lying against cell wall (parietal chloroplast). pyrenoid surrounded by a few starch grains.
klebsormidium_image klebsormidium_image
Left : microscope image (differential interference, X1000)
Right: microscope image (X1000)
Scale bars = 10 μm
Klebsormidium nitens NIES-2285 (formerly identified as K. flaccidum) was provided from the National Institute for Environmental Studies (NIES) of Japan.
Genome assemble status
- version 1.0 (Latest version) Reads
Roche 454 GS FLX Titanium
Single run
4,103,759
reads
3 Kbp mate pair
1,483,727
reads
Illumina Genome Analyzer IIx
75 bp paire
54,525,596
reads
Statistics for assembly of the nuclear genome
Number of scaffolds
1,812
scaffolds
Total scaffolds length
103,921,766
bp
Scaffold N50 size (N50)
134,930
bp (229 scaffolds)
Contig N50 size
56,148
bp
Peak coverage
40
Organellar genomes status
- version 1.0 (Latest version) Statistical analysis of organellar genomes
Chloroplast
genome size
181,482
bp
(scaffold kfl01813)
Protein-coding genes
117
genes
tRNA
36
genes
rRNA
6
genes
Mitochondrion
genome size
106,468
bp
(scaffold kfl01814)
Protein-coding genes
35
genes
tRNA
29
genes
rRNA
3
genes
Predicted transcripts status
- version 1.1 (Latest version) Statistical analysis of transcripts
- version 1.0 (Old version) Statistical analysis of transcripts
Roche 454 GS FLX Titanium
Single run
1,457,422
reads
Illumina GAIIx
Single 69 bp
215,698,946
reads
Statistical analysis of nuclear genes
Predicted protein-coding genes
17,055
genes
Genes predicted both 5' UTR and 3' UTR
9,100
genes
Genes predicted 5' UTR only
780
genes
Genes predicted 3' UTR only
1,353
genes
Roche 454 GS FLX Titanium
Single run
1,457,422
reads
18,661
Isotigs
17,422
Isogroups
Statistical analysis of nuclear genes
Predicted protein-coding genes
16,063
genes
At least partially supported by assembled transcripts
10,731
genes (66.2%)
Fully supported by assembled transcripts
7,376
genes (45.5%)
Publications
- 1) Klebsormidium flaccidum genome reveals primary factors for plant terrestrial adaptation K Hori, F Maruyama, T Fujisawa, T Togashi, N Yamamoto, M Seo, S Sato, T Yamada, H Mori, N Tajima, T Moriyama, M Ikeuchi, M Watanabe, H Wada, K Kobayashi, M Saito, T Masuda, Y Sasaki-Sekimoto, K Mashiguchi, K Awai, M Shimojima, S Masuda, M Iwai, T Nobusawa, T Narise, S Kondo, H Saito, R Sato, M Murakawa, Y Ihara, Y Oshima-Yamada, K O, M Satoh, K Sonobe, M Ishii, R Ohtani, M Kanamori-Sato, R Honoki, D Miyazaki, H Mochizuki, J Umetsu, K Higashi, D Shibata, Y Kamiya, N Sato, Y Nakamura, S Tabata, S Ida, K Kurokawa, H Ohta
Nature communications 5, 4978 (doi:10.1038/ncomms4978)
(Klebsormidium flaccidum NIES-2285 was re-identified as Klebsormidium nitens NIES-2285, 2016 Jun)