Genome sequence and analysis of the Japanese morning glory Ipomoea nil

Hoshino, Atsushi; Jayakumar, Vasanthan; Nitasaka, Eiji; Toyoda, Atsushi; Noguchi, Hirofumi; Itoh, Takehiko; Shin-I, Tadasu; Minakuchi, Yohei; Koda, Yuki; Nagano, Atsushi J.; Yasugi, Masaki; Honjo, Mie N.; Kudoh, Hiroshi; Seki, Motoaki; Kamiya, Asako; Shiraki, Toshiyuki; Carninci, Piero; Asamizu, Erika; Nishide, Hiroyo; Tanaka, Sachiko; Park, Kyeung-Il; Morita, Yasumasa; Yokoyama, Kohei; Uchiyama, Ikuo; Tanaka, Yoshikazu; Tabata, Satoshi; Shinozaki, Kazuo; Hayashizaki, Yoshihide; Kohara, Yuji; Suzuki, Yutaka; Sugano, Sumio; Fujiyama, Asao; Iida, Shigeru; Sakakibara, Yasubumi

doi:10.1038/ncomms13295

Cited by 144 publications

(143 citation statements)

References 68 publications

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“…Recent studies reported that high-quality genome sequence (Hoshino et al 2016) and the success of targeted mutagenesis by CRISPR/Cas9 system (Watanabe et al 2017) in I. nil. These information and technology would enable advanced carotenoid metabolic engineering so more progressive studies using I. nil will be conducted.…”

Section: Discussionmentioning

confidence: 99%

“…In the eighth century, only one cultivar of I. nil had heard to be imported from China to Japan as a medicinal plant (Hoshino et al 2016). The original cultivar bore pale blue flowers containing cyanidins: anthocyanin compounds.…”

Section: Introductionmentioning

confidence: 99%

“…In the seventeenth century, a lot of transposon mutagenesis caused the flower colour of I. nil to be varied e.g. red, pink, purple, brown, white (Hoshino et al 2016). However, there were no bright yellow-flowered cultivars of I. nil.…”

Section: Introductionmentioning

confidence: 99%

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Overexpression of carotenogenic genes in the Japanese morning glory Ipomoea (Pharbitis) nil

Watanabe

Oda-Yamamizo

Sage-Ono

et al. 2017

Plant Biotechnology

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Japanese morning glory, Ipomoea nil, has several coloured flowers except yellow, because it can accumulate only trace amounts of carotenoids in the petal. To make the petal yellow with carotenoids, we introduced five carotenogenic genes (geranylgeranyl pyrophosphate synthase, phytoene synthase, lycopene β-cyclase and β-ring hydroxylase from Ipomoea obscura var. lutea and bacterial phytoene desaturase from Pantoea ananatis) to white-flowered I. nil cv. AK77 with a petal-specific promoter by Rhizobium (Agrobacterium)-mediated transformation method. We succeeded to produce transgenic plants overexpressing carotenogenic genes. In the petal of the transgenic plants, mRNA levels of the carotenogenic genes were 10 to 1,000 times higher than those of non-transgenic control. The petal colour did not change visually; however, carotenoid concentration in the petal was increased up to about ten-fold relative to non-transgenic control. Moreover, the components of carotenoids in the petal were diversified, in particular, several β-carotene derivatives, such as zeaxanthin and neoxanthin, were newly synthesized. This is the first report, to our knowledge, of changing the component and increasing the amount of carotenoid in petals that lack ability to biosynthesize carotenoids.

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Section: Discussionmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

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Overexpression of carotenogenic genes in the Japanese morning glory Ipomoea (Pharbitis) nil

Watanabe

Oda-Yamamizo

Sage-Ono

et al. 2017

Plant Biotechnology

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“…Although, like in Arabidopsis, expression and activities of a number of Pharbitis genes and the physiological processes are presumed to exhibit circadian rhythms, those specifically affected by the clock system reset by the light-to-dark transition at dusk are still poorly understood because genes whose circadian expression was reported to be set by the dusk transition are currently limited to Pn FT1 and Pn FT2 . Unmasking genes whose circadian expression is set by lights-off by using genome-wide techniques such as RNAseq and knowledge on the recently uncovered whole genomic sequence in Pharbitis, 32 may help us to understand this physiological processes more deeply. Such a study may provide information on the significance of the dusk-set clock in adaptation to natural day/night cycles where the timing of sunrise and sunset annually changes with fluctuating day length.…”

mentioning

confidence: 99%

Differential effects of light-to-dark transitions on phase setting in circadian expression among clock-controlled genes in Pharbitis nil

Hayama

Mizoguchi

Coupland

2018

Plant Signaling & Behavior

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The circadian clock is synchronized by the day-night cycle to allow plants to anticipate daily environmental changes and to recognize annual changes in day length enabling seasonal flowering. This clock system has been extensively studied in Arabidopsis thaliana and was found to be reset by the dark to light transition at dawn. By contrast, studies on photoperiodic flowering of Pharbitis nil revealed the presence of a clock system reset by the transition from light to dark at dusk to measure the duration of the night. However, a Pharbitis photosynthetic gene was also shown to be insensitive to this dusk transition and to be set by dawn. Thus Pharbitis appeared to have two clock systems, one set by dusk that controls photoperiodic flowering and a second controlling photosynthetic gene expression similar to that of Arabidopsis. Here, we show that circadian mRNA expression of Pharbitis homologs of a series of Arabidopsis clock or clock-controlled genes are insensitive to the dusk transition. These data further define the presence in Pharbitis of a clock system that is analogous to the Arabidopsis system, which co-exists and functions with the dusk-set system dedicated to the control of photoperiodic flowering.

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“…To test this hypothesis, we measured proanthocyanidin accumulation in CHS-D, CHI, and ANS loss-of-function morning glory mutants. We then predicted genes involved in proanthocyanidin biosynthesis using the published I. nil draft genome sequence (Hoshino et al 2016). Finally, we screened a large collection of I. nil lines and related Ipomoea species to isolate novel mutants exhibiting altered proanthocyanidin pigmentation in seed coats.…”

Section: Introductionmentioning

confidence: 99%

Anthocyanin mutants of Japanese and common morning glories exhibit normal proanthocyanidin accumulation in seed coats

Park

Nitasaka

Hoshino

2018

Plant Biotechnology

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Anthocyanin and proanthocyanidin biosynthesis pathways are believed to overlap. This study examined proanthocyanidin accumulation in seed coats of morning glories (Ipomoea nil and I. purpurea) carrying mutations in CHS-D, CHI, and ANS genes encoding chalcone synthase, chalcone isomerase, and anthocyanidin synthase, respectively. Chemical staining revealed that mutants accumulate proanthocyanidin normally. Thus, the tested genes are not essential to proanthocyanidin biosynthesis, but are essential to anthocyanin biosynthesis in flowers and stems. Based on the results and the I. nil draft genome sequence, the genes involved in proanthocyanidin biosynthesis, including a new copy of the flavanone 3-hydroxylase gene could be predicted. Moreover, the genome has no homologs for known enzymes involved in producing flavan-3-ols, the starter and extension units of proanthocyanidin. These results suggested that I. nil produces flavan-3-ols through an undiscovered biosynthesis pathway. To characterize proanthocyanidin pigmentation further, we conducted mutant screening using a large I. nil population. We discovered that the brown mutant lines (exhibiting brown seeds and normal anthocyanin pigmentation) do not accumulate proanthocyanidin in their seed coats. Thus, the brown mutation should be useful for further investigations into the various mechanisms controlling anthocyanin and proanthocyanidin pathways.

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Genome sequence and analysis of the Japanese morning glory Ipomoea nil

Cited by 144 publications

References 68 publications

Overexpression of carotenogenic genes in the Japanese morning glory <i>Ipomoea</i> (<i>Pharbitis</i>) <i>nil</i>

Overexpression of carotenogenic genes in the Japanese morning glory <i>Ipomoea</i> (<i>Pharbitis</i>) <i>nil</i>

Differential effects of light-to-dark transitions on phase setting in circadian expression among clock-controlled genes in Pharbitis nil

Anthocyanin mutants of Japanese and common morning glories exhibit normal proanthocyanidin accumulation in seed coats

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