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Genome,Functional Gene Annotation,and Nuclear Transformation of the Heterokont Oleaginous Alga Nannochloropsis oceanica CCMP1779
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نویسنده
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vieler a. ,wu g. ,tsai c.-h. ,bullard b. ,cornish a.j. ,harvey c. ,reca i.-b. ,thornburg c. ,achawanantakun r. ,buehl c.j. ,campbell m.s. ,cavalier d. ,childs k.l. ,clark t.j. ,deshpande r. ,erickson e. ,armenia ferguson a. ,handee w. ,kong q. ,li x. ,liu b. ,lundback s. ,peng c. ,roston r.l. ,sanjaya department of biochemistry and molecular biology ,simpson j.p. ,terbush a. ,warakanont j. ,zäuner s. ,farre e.m. ,hegg e.l. ,jiang n. ,kuo m.-h. ,lu y. ,niyogi k.k. ,ohlrogge j. ,osteryoung k.w. ,shachar-hill y. ,sears b.b. ,sun y. ,takahashi h. ,yandell m. ,shiu s.-h. ,benning c.
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منبع
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plos genetics - 2012 - دوره : 8 - شماره : 11
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چکیده
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Unicellular marine algae have promise for providing sustainable and scalable biofuel feedstocks,although no single species has emerged as a preferred organism. moreover,adequate molecular and genetic resources prerequisite for the rational engineering of marine algal feedstocks are lacking for most candidate species. heterokonts of the genus nannochloropsis naturally have high cellular oil content and are already in use for industrial production of high-value lipid products. first success in applying reverse genetics by targeted gene replacement makes nannochloropsis oceanica an attractive model to investigate the cell and molecular biology and biochemistry of this fascinating organism group. here we present the assembly of the 28.7 mb genome of n. oceanica ccmp1779. rna sequencing data from nitrogen-replete and nitrogen-depleted growth conditions support a total of 11,973 genes,of which in addition to automatic annotation some were manually inspected to predict the biochemical repertoire for this organism. among others,more than 100 genes putatively related to lipid metabolism,114 predicted transcription factors,and 109 transcriptional regulators were annotated. comparison of the n. oceanica ccmp1779 gene repertoire with the recently published n. gaditana genome identified 2,649 genes likely specific to n. oceanica ccmp1779. many of these n. oceanica-specific genes have putative orthologs in other species or are supported by transcriptional evidence. however,because similarity-based annotations are limited,functions of most of these species-specific genes remain unknown. aside from the genome sequence and its analysis,protocols for the transformation of n. oceanica ccmp1779 are provided. the availability of genomic and transcriptomic data for nannochloropsis oceanica ccmp1779,along with efficient transformation protocols,provides a blueprint for future detailed gene functional analysis and genetic engineering of nannochloropsis species by a growing academic community focused on this genus. © 2012 vieler et al.
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آدرس
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department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, cell and molecular biology program,michigan state university,east lansing,mi, United States, department of plant biology,michigan state university,east lansing,mi,united states,doe-plant research laboratory,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, doe-plant research laboratory,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, deptartment of computer science and engineering,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi,united states,cell and molecular biology program,michigan state university,east lansing,mi, United States, department of human genetics,university of utah,salt lake city,ut, United States, doe-plant research laboratory,michigan state university,east lansing,mi, United States, department of plant biology,michigan state university,east lansing,mi, United States, department of biological sciences,western michigan university,kalamazoo,mi, United States, department of plant biology,michigan state university,east lansing,mi, United States, howard hughes medical institute,department of plant and microbial biology,university of california berkeley,berkeley,ca,united states,physical biosciences division,lawrence berkeley national laboratory,berkeley,ca, United States, department of horticulture,michigan state university,east lansing,mi, United States, cell and molecular biology program,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, department of plant biology,michigan state university,east lansing,mi,united states,doe-plant research laboratory,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, department of plant biology,michigan state university,east lansing,mi,united states,doe-plant research laboratory,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, michigan state university,east lansing,mi, United States, department of plant biology,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi,united states,department of plant biology,michigan state university,east lansing,mi, United States, department of plant biology,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, department of plant biology,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, department of horticulture,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, department of biological sciences,western michigan university,kalamazoo,mi, United States, howard hughes medical institute,department of plant and microbial biology,university of california berkeley,berkeley,ca,united states,physical biosciences division,lawrence berkeley national laboratory,berkeley,ca, United States, department of plant biology,michigan state university,east lansing,mi, United States, department of plant biology,michigan state university,east lansing,mi, United States, department of plant biology,michigan state university,east lansing,mi, United States, department of plant biology,michigan state university,east lansing,mi, United States, deptartment of computer science and engineering,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States, department of human genetics,university of utah,salt lake city,ut, United States, cell and molecular biology program,michigan state university,east lansing,mi,united states,department of plant biology,michigan state university,east lansing,mi, United States, department of biochemistry and molecular biology,michigan state university,east lansing,mi, United States
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Authors
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