List of sequenced algae genomes: Difference between revisions

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|''[[Porphyridium purpureum]]''
|''[[Porphyridium purpureum]]''
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|[[Mesophile]]
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|19.7 Mb
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|8,355
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|[[Rutgers University]]
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|2013<ref>{{Cite journal|last=Bhattacharya|first=Debashish|last2=Price|first2=Dana C.|last3=Chan|first3=Cheong Xin|last4=Qiu|first4=Huan|last5=Rose|first5=Nicholas|last6=Ball|first6=Steven|last7=Weber|first7=Andreas P. M.|last8=Cecilia Arias|first8=Maria|last9=Henrissat|first9=Bernard|date=2013-06-17|title=Genome of the red alga Porphyridium purpureum|url=http://www.nature.com/articles/ncomms2931|journal=Nature Communications|language=En|volume=4|issue=1|doi=10.1038/ncomms2931|issn=2041-1723}}</ref>
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|''[[Pyropia yezoensis]]''
|''[[Pyropia yezoensis]]''
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|[[Mariculture]]
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|43.5 Mb
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|10,327
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|[http://www.fra.affrc.go.jp/english/eindex.html National Research Institute of Fisheries Science]
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|2013<ref>{{Cite journal|last=Nakamura|first=Yoji|last2=Sasaki|first2=Naobumi|last3=Kobayashi|first3=Masahiro|last4=Ojima|first4=Nobuhiko|last5=Yasuike|first5=Motoshige|last6=Shigenobu|first6=Yuya|last7=Satomi|first7=Masataka|last8=Fukuma|first8=Yoshiya|last9=Shiwaku|first9=Koji|date=2013-03-11|title=The First Symbiont-Free Genome Sequence of Marine Red Alga, Susabi-nori (Pyropia yezoensis)|url=http://journals.plos.org/plosone/article?id=10.1371/journal.pone.0057122|journal=PLOS ONE|language=en|volume=8|issue=3|pages=e57122|doi=10.1371/journal.pone.0057122|issn=1932-6203|pmc=PMC3594237|pmid=23536760}}</ref>
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Revision as of 15:23, 31 July 2018

This list of sequenced algae genomes contains algae species known to have publicly available complete genome sequences that have been assembled, annotated and published. Unassembled genomes are not included, nor are organelle only sequences. For plant genomes see the list of sequenced plant genomes. For all kingdoms, see the list of sequenced genomes.

Glaucophyte

Organism

strain

Type Relevance Genome

Size

Number

of genes

predicted

Organization Year of

Completion

Assembly

Status

Links
Cyanophora

paradoxa

Model

Organism

70.2 Mb 3,900 Rutgers University 2012[1] The Greenhouse[2]

Cyanophora Genome Project[3]

Green Algae

Organism

strain

Type Relevance Genome

Size

Number

of Genes

Predicted

Organization Year of

Completion

Assembly

Status

Links
Auxenochlorella protothecoides Biofuels 22.9 Mb 7,039 Tsinghua University 2014[4] The Greenhouse[2]
Bathycoccus prasinos Comparative analysis 15.1 Mb 7,900 Joint Genome Institute 2012[5]
Chlamydomonas reinhardtii CC-503

cw92 mt+

Model Organism 111.1 Mb 17,741 Joint Genome Institute 2017[6] Phytozome[7]

The Greenhouse[2]

Chlorella sorokiniana str. 1228 Biofuels 61.4 Mb Los Alamos National Lab 2018[8] The Greenhouse[2]
Chlorella sorokiniana UTEX 1230 Biofuels 58.5 Mb Los Alamos National Lab 2018[9] The Greenhouse[2]
Chlorella sorokiniana DOE1412 Biofuels 57.8 Mb Los Alamos National Lab 2018[10] The Greenhouse[2]
Chlorella variabilis NC64A Biofuels 46.2 Mb 9,791 2010[11] The Greenhouse[2]
Chlorella vulgaris Biofuels 37.3 Mb National Renewable

Energy Laboratory

2015[12] The Greenhouse[2]
Coccomyxa Subellipsoidea

sp. C-169

Biofuels 48.8 Mb 9839 Joint Genome Institute 2012[13] Phytozome[7]

The Greenhouse[2]

Dunaliella salina

CCAP19/18

Halophile

Biofuels

Beta-carotene and glycerol production

343.7 Mb 16,697 Joint Genome Institute 2017[14] Phytozome[7]
Micromonas

pusilla CCMP-1545

Marine

phytoplankton

21.9 Mb 10,575 Micromonas

Genome

Consortium

2009[15] Phytozome[7]

The Greenhouse[2]

Micromonas

pusilla

RCC299/NOUM17

Marine

phytoplankton

20.9 Mb 10,056 Joint Genome

Institute

2009[15] Phytozome[7]

The

Greenhouse[2]

Monoraphidium

neglectum

Biofuels 69.7 Mb 16,755 Bielefeld

University

2013[16] The

Greenhouse[2]

Ostreococcus

lucimarinus

CCE9901

Small genome 13.2 Mb 7,603 Joint Genome Institute 2007[17] Phytozome[7]
Ostreococcus

tauri OTH95

Small genome 12.9 Mb 7,699 CNRS 2014[18] The Greenhouse[2]
Ostreococcus sp.

RCC809

Small genome 13.3 Mb 7,492 Joint Genome

Institute

2009[19] JGI[20]
Picochlorum

soloecismus

DOE101

Biofuels 15.2 Mb 7,844 Los Alamos

National Lab

2017[21] The Greenhouse[2]
Picochlorum

SENEW3

Biofuels 13.5 Mb 7,367 Rutgers University 2014[22] The Greenhouse[2]
Scenedesmus

obliquus DOE0152Z

Biofuels 210.3 Mb Brooklyn College 2017[23] The Greenhouse[2]
Tetraselmis sp. Biofuels 228 Mb Los Alamos

National Lab

2018[2] The Greenhouse[2]
Volvox Carteri Multicellular alga,

model organism

131.2 Mb 14,247 Joint Genome

Institute

2010[24] Phytozome[7]

The

Greenhouse[2]

Haptophyte

Organism

strain

Type Relevance Genome

Size

Number

of genes

predicted

Organization Year of

Completion

Assembly

Status

Links
Chrysochromulina

parva

Biofuels 65.8 Mb Los Alamos National Laboratory 2018[25] The Greenhouse[2]
Chrysochromulina tobinii CCMP291 Model organism, Biofuels 59.1 Mb 16,765 University of Washington 2015[26] The Greenhouse[2]
Emiliania huxleyi Coccolithophore Alkenone production, Algal blooms 167.7 Mb 38,554 Joint Genome Institute 2013[27] The Greenhouse[2]

Heterokonts/Stramenophiles

Organism

strain

Type Relevance Genome

Size

Number

of genes

predicted

Organization Year of

Completion

Assembly

Status

Links
Aureococcus

anophagefferens

Harmful Algal

Bloom

50.1 Mb 11,522 Joint Genome Institute 2011[28] The Greenhouse[2]
Ectocarpus siliculosus Brown algae Model organism 198.5 Mb 16,269 Genoscope 2012[29] The Greenhouse[2]
Nannochloropsis

gaditana

Biofuels 28.5 Mb 10,486 University of Padua 2014[30] The Greenhouse[2]
Nannochloropsis

oceanica

Biofuels 31.5 Mb Chinese Academy of Sciences, Qingdao Institute of Bioenergy and Bioprocess Technology 2016[31] The Greenhouse[2]
Nannochloropsis Salina CCMP1766 Biofuels 24.4 Mb Chinese Academy of Sciences, Qingdao Institute of Bioenergy and Bioprocess Technology 2016[32] The Greenhouse[2]
Phaeodactylum tricornutum Model organism 27.5 Mb 10,408 Diatom Consortium 2008[33] The Greenhouse[2]
Saccharina japonica Brown algae Commercial crop 543.4 Mb Chinese Academy of Sciences, Beijing Institutes of Life Science 2015[34] The Greenhouse[2]
Thalassiosira oceanica CCMP 1005 Model organism 92.2 Mb 34,642 The Future Ocean 2012[35] The Greenhouse[2]
Thalassiosira pseudonana model organism 32.4 Mb 11,673 Diatom Consortium 2009[36] The Greenhouse[2]

Red Algae (Rhodophyte)

Organism

strain

Type Relevance Genome

Size

Number

of genes

predicted

Organization Year of

Completion

Assembly

Status

Links
Chondrus crispus Carrageenan production, model organism 105 Mb 9,606 Genoscope 2013 The Greenhouse[2]
Cyanidioschyzon

merolae 10D

Model

organism

16.5 Mb 4,775 National Institute

of Genetics, Japan

2007[37] The Greenhouse[2]
Galdieria sulphuraria Extremophile 12.1 Mb The University of York 2016[38] The Greenhouse[2]
Porphyridium purpureum Mesophile 19.7 Mb 8,355 Rutgers University 2013[39]
Pyropia yezoensis Mariculture 43.5 Mb 10,327 National Research Institute of Fisheries Science 2013[40]

Rhizaria

Organism

strain

Type Relevance Genome

Size

Number

of genes

predicted

Organization Year of

Completion

Assembly

Status

Links

Cryptomonad

Organism

strain

Type Relevance Genome Size Number

of genes

predicted

Organization Year of

Completion

Assembly

Status

Links

References

  1. ^ Price DC, Chan CX, Yoon HS, Yang EC, Qiu H, Weber AP, et al. (February 2012). "Cyanophora paradoxa genome elucidates origin of photosynthesis in algae and plants". Science. 335 (6070): 843–7. doi:10.1126/science.1213561. PMID 22344442.
  2. ^ a b c d e f g h i j k l m n o p q r s t u v w x y z aa ab ac ad ae af ag ah "Home | Greenhouse". greenhouse.lanl.gov. Retrieved 2018-07-11.
  3. ^ "Cyanophora Genome Project". cyanophora.rutgers.edu. Retrieved 2018-07-12.
  4. ^ Gao C, Wang Y, Shen Y, Yan D, He X, Dai J, Wu Q (July 2014). "Oil accumulation mechanisms of the oleaginous microalga Chlorella protothecoides revealed through its genome, transcriptomes, and proteomes". BMC Genomics. 15: 582. doi:10.1186/1471-2164-15-582. PMC 4111847. PMID 25012212.{{cite journal}}: CS1 maint: unflagged free DOI (link)
  5. ^ Moreau H, Verhelst B, Couloux A, Derelle E, Rombauts S, Grimsley N, et al. (August 2012). "Gene functionalities and genome structure in Bathycoccus prasinos reflect cellular specializations at the base of the green lineage". Genome Biology. 13 (8): R74. doi:10.1186/gb-2012-13-8-r74. PMC 3491373. PMID 22925495.{{cite journal}}: CS1 maint: unflagged free DOI (link)
  6. ^ "Phytozome". phytozome.jgi.doe.gov. Retrieved 2018-07-12.
  7. ^ a b c d e f g "Phytozome". phytozome.jgi.doe.gov. Retrieved 2018-07-12.
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  9. ^ "ASM313072v1 - Genome - Assembly - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-13.
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  11. ^ Blanc G, Duncan G, Agarkova I, Borodovsky M, Gurnon J, Kuo A, et al. (September 2010). "The Chlorella variabilis NC64A genome reveals adaptation to photosymbiosis, coevolution with viruses, and cryptic sex". The Plant Cell. 22 (9): 2943–55. doi:10.1105/tpc.110.076406. PMC 2965543. PMID 20852019.
  12. ^ "ASM102112v1 - Genome - Assembly - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-13.
  13. ^ "Coccomyxa subellipsoidae v2.0 - Genome - Assembly - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-13.
  14. ^ "Dsal_v1.0 - Genome - Assembly - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-13.
  15. ^ a b Worden AZ, Lee JH, Mock T, Rouzé P, Simmons MP, Aerts AL, et al. (April 2009). "Green evolution and dynamic adaptations revealed by genomes of the marine picoeukaryotes Micromonas". Science. 324 (5924): 268–72. doi:10.1126/science.1167222. PMID 19359590.
  16. ^ Bogen C, Al-Dilaimi A, Albersmeier A, Wichmann J, Grundmann M, Rupp O, et al. (December 2013). "Reconstruction of the lipid metabolism for the microalga Monoraphidium neglectum from its genome sequence reveals characteristics suitable for biofuel production". BMC Genomics. 14: 926. doi:10.1186/1471-2164-14-926. PMC 3890519. PMID 24373495.{{cite journal}}: CS1 maint: unflagged free DOI (link)
  17. ^ Palenik B, Grimwood J, Aerts A, Rouzé P, Salamov A, Putnam N, et al. (May 2007). "The tiny eukaryote Ostreococcus provides genomic insights into the paradox of plankton speciation". Proceedings of the National Academy of Sciences of the United States of America. 104 (18): 7705–10. doi:10.1073/pnas.0611046104. PMC 1863510. PMID 17460045.
  18. ^ Blanc-Mathieu R, Verhelst B, Derelle E, Rombauts S, Bouget FY, Carré I, et al. (December 2014). "An improved genome of the model marine alga Ostreococcus tauri unfolds by assessing Illumina de novo assemblies". BMC Genomics. 15 (1): 1103. doi:10.1186/1471-2164-15-1103. PMC 4378021. PMID 25494611.{{cite journal}}: CS1 maint: unflagged free DOI (link)
  19. ^ "Info - Ostreococcus sp. RCC809". genome.jgi.doe.gov. Retrieved 2018-07-16.
  20. ^ "Home - Ostreococcus sp. RCC809". genome.jgi.doe.gov. Retrieved 2018-07-26.
  21. ^ Gonzalez-Esquer CR, Twary SN, Hovde BT, Starkenburg SR (January 2018). "Picochlorum soloecismus". Genome Announcements. 6 (4): e01498–17. doi:10.1128/genomeA.01498-17. PMID 29371352.
  22. ^ Foflonker F, Price DC, Qiu H, Palenik B, Wang S, Bhattacharya D (February 2015). "Genome of the halotolerant green alga Picochlorum sp. reveals strategies for thriving under fluctuating environmental conditions". Environmental Microbiology. 17 (2): 412–26. doi:10.1111/1462-2920.12541. PMID 24965277.
  23. ^ Starkenburg SR, Polle JE, Hovde B, Daligault HE, Davenport KW, Huang A, et al. (August 2017). "Scenedesmus obliquus Strain DOE0152z". Genome Announcements. 5 (32). doi:10.1128/genomeA.00617-17. PMC 5552973. PMID 28798164.
  24. ^ Prochnik SE, Umen J, Nedelcu AM, Hallmann A, Miller SM, Nishii I, et al. (July 2010). "Genomic analysis of organismal complexity in the multicellular green alga Volvox carteri". Science. 329 (5988): 223–6. doi:10.1126/science.1188800. PMC 2993248. PMID 20616280.
  25. ^ "ASM288719v1 - Genome - Assembly - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-11.
  26. ^ "Ctobinv2 - Genome - Assembly - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-27.
  27. ^ Read, Betsy A.; Kegel, Jessica; Klute, Mary J.; Kuo, Alan; Lefebvre, Stephane C.; Maumus, Florian; Mayer, Christoph; Miller, John; Monier, Adam (2013-06-12). "Pan genome of the phytoplankton Emiliania underpins its global distribution". Nature. 499 (7457): 209–213. doi:10.1038/nature12221. ISSN 0028-0836.
  28. ^ Gobler CJ, Berry DL, Dyhrman ST, Wilhelm SW, Salamov A, Lobanov AV, et al. (March 2011). "Niche of harmful alga Aureococcus anophagefferens revealed through ecogenomics". Proceedings of the National Academy of Sciences of the United States of America. 108 (11): 4352–7. doi:10.1073/pnas.1016106108. PMC 3060233. PMID 21368207.
  29. ^ "ASM31002v1 - Genome - Assembly - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-11.
  30. ^ Corteggiani Carpinelli E, Telatin A, Vitulo N, Forcato C, D'Angelo M, Schiavon R, et al. (February 2014). "Chromosome scale genome assembly and transcriptome profiling of Nannochloropsis gaditana in nitrogen depletion". Molecular Plant. 7 (2): 323–35. doi:10.1093/mp/sst120. PMID 23966634.
  31. ^ "ASM187094v1 - Genome - Assembly - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-26.
  32. ^ "ASM161424v1 - Genome - Assembly - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-26.
  33. ^ "Phaeodactylum tricornutum (ID 418) - Genome - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-26.
  34. ^ "SJ6.1 - Genome - Assembly - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-27.
  35. ^ Jiang, Zhigang; Liu, Shaoying; Wu, Yi; Jiang, Xuelong; Zhou, Kaiya (2017). "China’s mammal diversity (2nd edition)". Biodiversity Science. 25 (8): 886–895. doi:10.17520/biods.2017098. ISSN 1005-0094.
  36. ^ "ASM14940v2 - Genome - Assembly - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-27.
  37. ^ Nozaki H, Takano H, Misumi O, Terasawa K, Matsuzaki M, Maruyama S, et al. (July 2007). "A 100%-complete sequence reveals unusually simple genomic features in the hot-spring red alga Cyanidioschyzon merolae". BMC Biology. 5: 28. doi:10.1186/1741-7007-5-28. PMC 1955436. PMID 17623057.{{cite journal}}: CS1 maint: unflagged free DOI (link)
  38. ^ "ASM170485v1 - Genome - Assembly - NCBI". www.ncbi.nlm.nih.gov. Retrieved 2018-07-30.
  39. ^ Bhattacharya, Debashish; Price, Dana C.; Chan, Cheong Xin; Qiu, Huan; Rose, Nicholas; Ball, Steven; Weber, Andreas P. M.; Cecilia Arias, Maria; Henrissat, Bernard (2013-06-17). "Genome of the red alga Porphyridium purpureum". Nature Communications. 4 (1). doi:10.1038/ncomms2931. ISSN 2041-1723.
  40. ^ Nakamura, Yoji; Sasaki, Naobumi; Kobayashi, Masahiro; Ojima, Nobuhiko; Yasuike, Motoshige; Shigenobu, Yuya; Satomi, Masataka; Fukuma, Yoshiya; Shiwaku, Koji (2013-03-11). "The First Symbiont-Free Genome Sequence of Marine Red Alga, Susabi-nori (Pyropia yezoensis)". PLOS ONE. 8 (3): e57122. doi:10.1371/journal.pone.0057122. ISSN 1932-6203. PMC 3594237. PMID 23536760.{{cite journal}}: CS1 maint: PMC format (link) CS1 maint: unflagged free DOI (link)
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