Draft Genome Sequence of the Fast-Growing Bacterium Vibrio natriegens Strain DSMZ 759

Maida, Isabel; Bosi, Emanuele; Perrin, Elena; Papaleo, Maria Cristiana; Orlandini, Valerio; Fondi, Marco; Fani, Renato; Wiegel, Juergen; Bianconi, Giovanna; Canganella, Francesco

doi:10.1128/genomea.00648-13

Cited by 36 publications

(29 citation statements)

References 8 publications

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“…Oligotrophs and copiotrophs differ in genome size as well as in maximum growth rate (Lauro et al 2009, Swan et al 2013, Yooseph et al 2010, leading to the hypothesis that bacteria with large genomes grow faster than those with small genomes. It is true that the archetypical marine oligotroph, P. ubique, has one of the smallest genomes for free-living bacteria (1.3 Mb) (Giovannoni et al 2005) and grows much slower than a typical copiotroph such as V. natriegens, with its large, 5.2-Mb genome (Maida et al 2013). However, there is no relationship between genome size and growth rate when all bacteria and archaea are considered together .…”

Section: Genomic Characteristics Of Slow-and Fast-growing Bacteriamentioning

confidence: 97%

“…In fact, the organism with the highest growth rate is a marine bacterium, Vibrio natriegens, which is capable of doubling every 7 min (Maida et al 2013), equivalent to a growth rate of over 140 d −1 . At the other extreme, Pelagibacter ubique, a representative of the most abundant bacterial clade in the ocean, SAR11, has a generation time of nearly 2 days and growth rates of 0.4-0.6 d −1 in laboratory pure cultures (Carini et al 2013, Rappé et al 2002.…”

Section: Growth Rates Of Phytoplankton and Bacterial Communitiesmentioning

confidence: 99%

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Growth Rates of Microbes in the Oceans

Kirchman

2016

Annu. Rev. Mar. Sci.

211

203

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A microbe's growth rate helps to set its ecological success and its contribution to food web dynamics and biogeochemical processes. Growth rates at the community level are constrained by biomass and trophic interactions among bacteria, phytoplankton, and their grazers. Phytoplankton growth rates are approximately 1 d(-1), whereas most heterotrophic bacteria grow slowly, close to 0.1 d(-1); only a few taxa can grow ten times as fast. Data from 16S rRNA and other approaches are used to speculate about the growth rate and the life history strategy of SAR11, the most abundant clade of heterotrophic bacteria in the oceans. These strategies are also explored using genomic data. Although the methods and data are imperfect, the available data can be used to set limits on growth rates and thus on the timescale for changes in the composition and structure of microbial communities.

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Section: Genomic Characteristics Of Slow-and Fast-growing Bacteriamentioning

confidence: 97%

Section: Growth Rates Of Phytoplankton and Bacterial Communitiesmentioning

confidence: 99%

Growth Rates of Microbes in the Oceans

Kirchman

2016

Annu. Rev. Mar. Sci.

211

203

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“…NEB Turbo TM ) grown in the same culture conditions. The genome of V. natriegens has been recently sequenced (Maida et al, 2013;Lee et al, 2016) and, in an attempt to develop this host as a functional chassis for bioproduction, a number of techniques and tools have been tested and developed, including expression vectors, protocols for DNA transformation, synthetic promoters covering a range of expression strengths and tools for manipulating gene expression levels via CRISPRi (Lee et al, 2016;Weinstock et al, 2016). The fast growth of this bacterium allows for a significant speed-up of laboratory cloning procedures, as colonies are already visible on a plate after a mere six-h post-transformation incubation.…”

Section: Vibrio Natriegensmentioning

confidence: 99%

Chasing bacterial chassis for metabolic engineering: a perspective review from classical to non‐traditional microorganisms

Calero

Nikel

2018

Microbial Biotechnology

228

184

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The last few years have witnessed an unprecedented increase in the number of novel bacterial species that hold potential to be used for metabolic engineering. Historically, however, only a handful of bacteria have attained the acceptance and widespread use that are needed to fulfil the needs of industrial bioproduction - and only for the synthesis of very few, structurally simple compounds. One of the reasons for this unfortunate circumstance has been the dearth of tools for targeted genome engineering of bacterial chassis, and, nowadays, synthetic biology is significantly helping to bridge such knowledge gap. Against this background, in this review, we discuss the state of the art in the rational design and construction of robust bacterial chassis for metabolic engineering, presenting key examples of bacterial species that have secured a place in industrial bioproduction. The emergence of novel bacterial chassis is also considered at the light of the unique properties of their physiology and metabolism, and the practical applications in which they are expected to outperform other microbial platforms. Emerging opportunities, essential strategies to enable successful development of industrial phenotypes, and major challenges in the field of bacterial chassis development are also discussed, outlining the solutions that contemporary synthetic biology-guided metabolic engineering offers to tackle these issues.

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“…This means that digital equivalents of point mutation are extraordinarily rare per replication. However, the speed of reproduction for digital information is orders of magnitude faster than that of cellular life forms, where the shortest known doubling time is approximately 10 minutes (for a 5 million base pair genome) [63]. The speed of digital generation times may even out the realized 'point mutations' per unit time for the digital and biological worlds.…”

Section: Digital Variationmentioning

confidence: 99%