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Cited by 83Algal biology and biofuel productionGenomics and Phylogenetic StudiesProtist diversity and phylogeny

Chlorella vulgaris genome assembly and annotation reveals the molecular basis for metabolic acclimation to high light conditions

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Cecchin, Michela, Marcolungo, Luca, Rossato, Marzia, Girolomoni, Laura, Cosentino, Emanuela, Cuine, Stephan, Li‐Beisson, Yonghua, Delledonne, Massimo +1 more·2019·The Plant Journal
DOI 10.1111/tpj.14508PMC PMC6972661
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Abstract

Summary: Chlorella vulgaris is a fast‐growing fresh‐water microalga cultivated on the industrial scale for applications ranging from food to biofuel production. To advance our understanding of its biology and to establish genetics tools for biotechnological manipulation, we sequenced the nuclear and organelle genomes of Chlorella vulgaris 211/11P by combining next generation sequencing and optical mapping of isolated DNA molecules. This hybrid approach allowed us to assemble the nuclear genome in 14 pseudo‐molecules with an N50 of 2.8 Mb and 98.9% of scaffolded genome. The integration of RNA‐seq data obtained at two different irradiances of growth (high light, HL versus low light, LL) enabled us to identify 10 724 nuclear genes, coding for 11 082 transcripts. Moreover, 121 and 48 genes, respectively, were found in the chloroplast and mitochondrial genome. Functional annotation and expression analysis of nuclear, chloroplast and mitochondrial genome sequences revealed particular features of Chlorella vulgaris . Evidence of horizontal gene transfers from chloroplast to mitochondrial genome was observed. Furthermore, comparative transcriptomic analyses of LL versus HL provided insights into the molecular basis for metabolic rearrangement under HL versus LL conditions leading to enhanced de novo fatty acid biosynthesis and triacylglycerol accumulation. The occurrence of a cytosolic fatty acid biosynthetic pathway could be predicted and its upregulation upon HL exposure was observed, consistent with the increased lipid amount under HL conditions. These data provide a rich genetic resource for future genome editing studies, and potential targets for biotechnological manipulation of Chlorella vulgaris or other microalgae species to improve biomass and lipid productivity.

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  • Analysis of gene expression involved in lipid production at the transcriptome level in microalgae has offered valuable insights into metabolic pathways and contextual information regarding genomic-level modifications in algae.

    “In recent years, analysis of gene expression involved in lipid production at the transcriptome level in microalgae has offered valuable insights into metabolic pathways, as well as contextual information regarding modifications at the genomic level in algae [231–234].”

    From Microalgae biofuels: illuminating the path to a sustainable future amidst challenges and opportunities (2024) · cites this paper as [232]

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Cited by

Sorted by citations

Authors
Cecchin, M., Marcolungo, L., Rossato, M., Girolomoni, L., Cosentino, E., Cuine, S., Li‐Beisson, Y., Delledonne, M., & Ballottari, M.
Affiliations
  • University of Verona (IT)
  • Institute of Biosciences and Biotechnologies of Aix‐Marseille, UMR7265 Aix‐Marseille University CEA CNRS CEA Cadarache Saint‐Paul‐lez Durance F‐13108 France
  • Centre National de la Recherche Scientifique (FR)
Corresponding author
Ballottari, Matteo
ORCID
Venue
The Plant Journal
Publisher
Wiley
Published
2019-09-24
Volume
100
Issue
6
Pages
1289-1305
ISSN
  • 0960-7412 (ISSN-L)
  • 1365-313X
DOI
10.1111/tpj.14508
PMC
PMC6972661
OpenAlex
W2969593367
Cited by
83
References
3
Citations by year
2026: 14 · 2025: 15 · 2024: 23 · 2023: 6 · 2022: 10 · 2021: 11 · 2020: 4
FWCI
1.33
Type
journal article
Language
en
Open access
Licence
Locations
  • The Plant Journal (publishedVersion, cc-by)
  • PubMed Central (publishedVersion, cc-by)
  • PubMed (publishedVersion)
  • HAL AMU (submittedVersion)
Funders
H2020 European Research Council (679814)
Topics
  • Physical Sciences › Energy › Renewable Energy, Sustainability and the Environment › Algal biology and biofuel production
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Genomics and Phylogenetic Studies
  • Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Protist diversity and phylogeny
Keywords
Chlorella vulgaris, genome assembly, genome annotation, high light acclimation, chloroplast genome, mitochondrial genome, horizontal gene transfer, fatty acid synthesis, triglyceride accumulation, lipid metabolism, transcriptome, microalgae, biofuel feedstock
MeSH terms
Acclimatization, Base Sequence, Biotechnology, Fatty Acids, Light, Lipids, Meiosis, Phylogeny, Triglycerides, Gene Expression Regulation, Plant, Biomass, Genome, Plant, Gene Transfer, Horizontal, Chlorella vulgaris, Biosynthetic Pathways, Genome, Mitochondrial, Biofuels, Molecular Sequence Annotation, Transcriptome, Gene Ontology, Fatty Acid Synthases

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