当前位置： SCI文献检索 > Nature Communications期刊下所有文献 > Gene clustering and copy number variation in alkaloid metabolic pathways of opium poppy.

Gene clustering and copy number variation in alkaloid metabolic pathways of opium poppy.

Abstract：

:Genes in plant secondary metabolic pathways enable biosynthesis of a range of medically and industrially important compounds, and are often clustered on chromosomes. Here, we study genomic clustering in the benzylisoquinoline alkaloid (BIA) pathway in opium poppy (Papaver somniferum), exploring relationships between gene expression, copy number variation, and metabolite production. We use Hi-C to improve the existing draft genome assembly, yielding chromosome-scale scaffolds that include 35 previously unanchored BIA genes. We find that co-expression of BIA genes increases within clusters and identify candidates with unknown function based on clustering and covariation in expression and alkaloid production. Copy number variation in critical BIA genes correlates with stark differences in alkaloid production, linking noscapine production with an 11-gene deletion, and increased thebaine/decreased morphine production with deletion of a T6ODM cluster. Our results show that the opium poppy genome is still dynamically evolving in ways that contribute to medically and industrially important phenotypes.

journal_name

Nat Commun

journal_title

Nature communications

authors

Li Q,Ramasamy S,Singh P,Hagel JM,Dunemann SM,Chen X,Chen R,Yu L,Tucker JE,Facchini PJ,Yeaman S

doi

10.1038/s41467-020-15040-2

subject

Has Abstract

pub_date

2020-03-04 00:00:00

pages

1190

issue

1

issn

2041-1723

pii

10.1038/s41467-020-15040-2

journal_volume

11

pub_type

杂志文章

相关文献

Nature Communications文献大全
  • High protein copy number is required to suppress stochasticity in the cyanobacterial circadian clock.

    abstract：:Circadian clocks generate reliable ~24-h rhythms despite being based on stochastic biochemical reactions. The circadian clock in Synechococcus elongatus uses a post-translational oscillator that cycles deterministically in a test tube. Because the volume of a single bacterial cell is much smaller than a macroscopic re...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-05109-4

    authors： Chew J,Leypunskiy E,Lin J,Murugan A,Rust MJ

    更新日期：2018-08-01 00:00:00

  • Origin of the unusually strong and selective binding of vanadium by polyamidoximes in seawater.

    abstract：:Amidoxime-functionalized polymeric adsorbents are the current state-of-the-art materials for collecting uranium (U) from seawater. However, marine tests show that vanadium (V) is preferentially extracted over U and many other cations. Herein, we report a complementary and comprehensive investigation integrating ab ini...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-017-01443-1

    authors： Ivanov AS,Leggett CJ,Parker BF,Zhang Z,Arnold J,Dai S,Abney CW,Bryantsev VS,Rao L

    更新日期：2017-11-16 00:00:00

  • Publisher Correction: Role of outer surface probes for regulating ion gating of nanochannels.

    abstract：:The original version of this Article contained an error in Fig. 3. The scale bars in Figs 3c and 3d were incorrectly labelled as 50 μA. In the correct version, the scale bars are labelled as 0.5 μA. This has now been corrected in both the PDF and HTML versions of the Article. ...

    journal_title：Nature communications

    pub_type： 杂志文章,已发布勘误

    doi：10.1038/s41467-018-03030-4

    authors： Li X,Zhai T,Gao P,Cheng H,Hou R,Lou X,Xia F

    更新日期：2018-02-08 00:00:00

  • Modelling kidney disease with CRISPR-mutant kidney organoids derived from human pluripotent epiblast spheroids.

    abstract：:Human-pluripotent-stem-cell-derived kidney cells (hPSC-KCs) have important potential for disease modelling and regeneration. Whether the hPSC-KCs can reconstitute tissue-specific phenotypes is currently unknown. Here we show that hPSC-KCs self-organize into kidney organoids that functionally recapitulate tissue-specif...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms9715

    authors： Freedman BS,Brooks CR,Lam AQ,Fu H,Morizane R,Agrawal V,Saad AF,Li MK,Hughes MR,Werff RV,Peters DT,Lu J,Baccei A,Siedlecki AM,Valerius MT,Musunuru K,McNagny KM,Steinman TI,Zhou J,Lerou PH,Bonventre JV

    更新日期：2015-10-23 00:00:00

  • Site-selective C-H hydroxylation of pentacyclic triterpenoids directed by transient chiral pyridine-imino groups.

    abstract：:Pentacyclic triterpenoids (PTs) constitute one of the biggest families of natural products, many with higher oxidation state at the D/E rings possess a wide spectrum of biological activties but are poorly accessible. Here we report a site-selective C-H hydroxylation at the D/E rings of PTs paving a way toward these im...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-18138-9

    authors： Mu T,Wei B,Zhu D,Yu B

    更新日期：2020-09-01 00:00:00

  • Central circuit mechanisms of itch.

    abstract：:Itch, in particular chronic forms, has been widely recognized as an important clinical problem, but much less is known about the mechanisms of itch in comparison with other sensory modalities such as pain. Recently, considerable progress has been made in dissecting the circuit mechanisms of itch at both the spinal and...

    journal_title：Nature communications

    pub_type： 杂志文章,评审

    doi：10.1038/s41467-020-16859-5

    authors： Chen XJ,Sun YG

    更新日期：2020-06-16 00:00:00

  • Structure of transcribing RNA polymerase II-nucleosome complex.

    abstract：:Transcription of eukaryotic protein-coding genes requires passage of RNA polymerase II (Pol II) through nucleosomes, but it is unclear how this is achieved. Here we report the cryo-EM structure of transcribing Saccharomyces cerevisiae Pol II engaged with a downstream nucleosome core particle at an overall resolution o...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-07870-y

    authors： Farnung L,Vos SM,Cramer P

    更新日期：2018-12-21 00:00:00

  • Surface melt driven summer diurnal and winter multi-day stick-slip motion and till sedimentology.

    abstract：:Fluctuations in glacier motion are very common and are thought to be controlled by subglacial hydrology and till deformation. There are few instrumented studies that have monitored seasonal changes. We use the innovative Glacsweb subglacial in situ wireless probes, combined with dGPS and custom geophone data from an I...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-09547-6

    authors： Hart JK,Martinez K,Basford PJ,Clayton AI,Robson BA,Young DS

    更新日期：2019-04-08 00:00:00

  • SMURF2 regulates bone homeostasis by disrupting SMAD3 interaction with vitamin D receptor in osteoblasts.

    abstract：:Coordination between osteoblasts and osteoclasts is required for bone health and homeostasis. Here we show that mice deficient in SMURF2 have severe osteoporosis in vivo. This low bone mass phenotype is accompanied by a pronounced increase in osteoclast numbers, although Smurf2-deficient osteoclasts have no intrinsic ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms14570

    authors： Xu Z,Greenblatt MB,Yan G,Feng H,Sun J,Lotinun S,Brady N,Baron R,Glimcher LH,Zou W

    更新日期：2017-02-20 00:00:00

  • Conformational gating of DNA conductance.

    abstract：:DNA is a promising molecule for applications in molecular electronics because of its unique electronic and self-assembly properties. Here we report that the conductance of DNA duplexes increases by approximately one order of magnitude when its conformation is changed from the B-form to the A-form. This large conductan...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms9870

    authors： Artés JM,Li Y,Qi J,Anantram MP,Hihath J

    更新日期：2015-12-09 00:00:00

  • No extension of quantum theory can have improved predictive power.

    abstract：:According to quantum theory, measurements generate random outcomes, in stark contrast with classical mechanics. This raises the question of whether there could exist an extension of the theory that removes this indeterminism, as suspected by Einstein, Podolsky and Rosen. Although this has been shown to be impossible, ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms1416

    authors： Colbeck R,Renner R

    更新日期：2011-08-02 00:00:00

  • Selection of GalNAc-conjugated siRNAs with limited off-target-driven rat hepatotoxicity.

    abstract：:Small interfering RNAs (siRNAs) conjugated to a trivalent N-acetylgalactosamine (GalNAc) ligand are being evaluated in investigational clinical studies for a variety of indications. The typical development candidate selection process includes evaluation of the most active compounds for toxicity in rats at pharmacologi...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-02989-4

    authors： Janas MM,Schlegel MK,Harbison CE,Yilmaz VO,Jiang Y,Parmar R,Zlatev I,Castoreno A,Xu H,Shulga-Morskaya S,Rajeev KG,Manoharan M,Keirstead ND,Maier MA,Jadhav V

    更新日期：2018-02-19 00:00:00

  • Purified F-ATP synthase forms a Ca2+-dependent high-conductance channel matching the mitochondrial permeability transition pore.

    abstract：:The molecular identity of the mitochondrial megachannel (MMC)/permeability transition pore (PTP), a key effector of cell death, remains controversial. By combining highly purified, fully active bovine F-ATP synthase with preformed liposomes we show that Ca2+ dissipates the H+ gradient generated by ATP hydrolysis. Afte...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-12331-1

    authors： Urbani A,Giorgio V,Carrer A,Franchin C,Arrigoni G,Jiko C,Abe K,Maeda S,Shinzawa-Itoh K,Bogers JFM,McMillan DGG,Gerle C,Szabò I,Bernardi P

    更新日期：2019-09-25 00:00:00

  • Hierarchical nanostructured aluminum alloy with ultrahigh strength and large plasticity.

    abstract：:High strength and high ductility are often mutually exclusive properties for structural metallic materials. This is particularly important for aluminum (Al)-based alloys which are widely commercially employed. Here, we introduce a hierarchical nanostructured Al alloy with a structure of Al nanograins surrounded by nan...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-13087-4

    authors： Wu G,Liu C,Sun L,Wang Q,Sun B,Han B,Kai JJ,Luan J,Liu CT,Cao K,Lu Y,Cheng L,Lu J

    更新日期：2019-11-08 00:00:00

  • Chiral spin torque arising from proximity-induced magnetization.

    abstract：:Domain walls can be driven by current at very high speeds in nanowires formed from ultra-thin, perpendicularly magnetized cobalt layers and cobalt/nickel multilayers deposited on platinum underlayers due to a chiral spin torque. An important feature of this torque is a magnetic chiral exchange field that each domain w...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms4910

    authors： Ryu KS,Yang SH,Thomas L,Parkin SS

    更新日期：2014-05-23 00:00:00

  • Plant GSK3 proteins regulate xylem cell differentiation downstream of TDIF-TDR signalling.

    abstract：:During plant radial growth typically seen in trees, procambial and cambial cells act as meristematic cells in the vascular system to self-proliferate and differentiate into xylem cells. These two processes are regulated by a signalling pathway composed of a peptide ligand and its receptor; tracheary element differenti...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms4504

    authors： Kondo Y,Ito T,Nakagami H,Hirakawa Y,Saito M,Tamaki T,Shirasu K,Fukuda H

    更新日期：2014-03-24 00:00:00

  • Aerodynamic generation of electric fields in turbulence laden with charged inertial particles.

    abstract：:Self-induced electricity, including lightning, is often observed in dusty atmospheres. However, the physical mechanisms leading to this phenomenon remain elusive as they are remarkably challenging to determine due to the high complexity of the multi-phase turbulent flows involved. Using a fast multi-pole method in dir...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-03958-7

    authors： Di Renzo M,Urzay J

    更新日期：2018-04-26 00:00:00

  • Demonstration of a positron beam-driven hollow channel plasma wakefield accelerator.

    abstract：:Plasma wakefield accelerators have been used to accelerate electron and positron particle beams with gradients that are orders of magnitude larger than those achieved in conventional accelerators. In addition to being accelerated by the plasma wakefield, the beam particles also experience strong transverse forces that...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms11785

    authors： Gessner S,Adli E,Allen JM,An W,Clarke CI,Clayton CE,Corde S,Delahaye JP,Frederico J,Green SZ,Hast C,Hogan MJ,Joshi C,Lindstrøm CA,Lipkowitz N,Litos M,Lu W,Marsh KA,Mori WB,O'Shea B,Vafaei-Najafabadi N,Walz D,Y

    更新日期：2016-06-02 00:00:00

  • Dynamic patterns of information flow in complex networks.

    abstract：:Although networks are extensively used to visualize information flow in biological, social and technological systems, translating topology into dynamic flow continues to challenge us, as similar networks exhibit fundamentally different flow patterns, driven by different interaction mechanisms. To uncover a network's a...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-017-01916-3

    authors： Harush U,Barzel B

    更新日期：2017-12-19 00:00:00

  • European land CO2 sink influenced by NAO and East-Atlantic Pattern coupling.

    abstract：:Large-scale climate patterns control variability in the global carbon sink. In Europe, the North-Atlantic Oscillation (NAO) influences vegetation activity, however the East-Atlantic (EA) pattern is known to modulate NAO strength and location. Using observation-driven and modelled data sets, we show that multi-annual v...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms10315

    authors： Bastos A,Janssens IA,Gouveia CM,Trigo RM,Ciais P,Chevallier F,Peñuelas J,Rödenbeck C,Piao S,Friedlingstein P,Running SW

    更新日期：2016-01-18 00:00:00

  • Terminal supraparticle assemblies from similarly charged protein molecules and nanoparticles.

    abstract：:Self-assembly of proteins and inorganic nanoparticles into terminal assemblies makes possible a large family of uniformly sized hybrid colloids. These particles can be compared in terms of utility, versatility and multifunctionality to other known types of terminal assemblies. They are simple to make and offer theoret...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms4593

    authors： Park JI,Nguyen TD,de Queirós Silveira G,Bahng JH,Srivastava S,Zhao G,Sun K,Zhang P,Glotzer SC,Kotov NA

    更新日期：2014-05-20 00:00:00

  • Selective and low temperature transition metal intercalation in layered tellurides.

    abstract：:Layered materials embrace rich intercalation reactions to accommodate high concentrations of foreign species within their structures, and find many applications spanning from energy storage, ion exchange to secondary batteries. Light alkali metals are generally most easily intercalated due to their light mass, high ch...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms13809

    authors： Yajima T,Koshiko M,Zhang Y,Oguchi T,Yu W,Kato D,Kobayashi Y,Orikasa Y,Yamamoto T,Uchimoto Y,Green MA,Kageyama H

    更新日期：2016-12-14 00:00:00

  • Tuning the activities of cuprous oxide nanostructures via the oxide-metal interaction.

    abstract：:Despite tremendous importance in catalysis, the design of oxide-metal interface has been hampered by the limited understanding of the nature of interfacial sites and the oxide-metal interaction (OMI). Through construction of well-defined Cu2O/Pt, Cu2O/Ag and Cu2O/Au interfaces, we find that Cu2O nanostructures (NSs) o...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-15965-8

    authors： Huang W,Liu Q,Zhou Z,Li Y,Ling Y,Wang Y,Tu Y,Wang B,Zhou X,Deng D,Yang B,Yang Y,Liu Z,Bao X,Yang F

    更新日期：2020-05-08 00:00:00

  • Circadian control of lung inflammation in influenza infection.

    abstract：:Influenza is a leading cause of respiratory mortality and morbidity. While inflammation is essential for fighting infection, a balance of anti-viral defense and host tolerance is necessary for recovery. Circadian rhythms have been shown to modulate inflammation. However, the importance of diurnal variability in the ti...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-019-11400-9

    authors： Sengupta S,Tang SY,Devine JC,Anderson ST,Nayak S,Zhang SL,Valenzuela A,Fisher DG,Grant GR,López CB,FitzGerald GA

    更新日期：2019-09-11 00:00:00

  • Nutrients cause grassland biomass to outpace herbivory.

    abstract：:Human activities are transforming grassland biomass via changing climate, elemental nutrients, and herbivory. Theory predicts that food-limited herbivores will consume any additional biomass stimulated by nutrient inputs ('consumer-controlled'). Alternatively, nutrient supply is predicted to increase biomass where her...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-020-19870-y

    authors： Borer ET,Harpole WS,Adler PB,Arnillas CA,Bugalho MN,Cadotte MW,Caldeira MC,Campana S,Dickman CR,Dickson TL,Donohue I,Eskelinen A,Firn JL,Graff P,Gruner DS,Heckman RW,Koltz AM,Komatsu KJ,Lannes LS,MacDougall AS,Mar

    更新日期：2020-11-27 00:00:00

  • Bifunctional non-noble metal oxide nanoparticle electrocatalysts through lithium-induced conversion for overall water splitting.

    abstract：:Developing earth-abundant, active and stable electrocatalysts which operate in the same electrolyte for water splitting, including oxygen evolution reaction and hydrogen evolution reaction, is important for many renewable energy conversion processes. Here we demonstrate the improvement of catalytic activity when trans...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms8261

    authors： Wang H,Lee HW,Deng Y,Lu Z,Hsu PC,Liu Y,Lin D,Cui Y

    更新日期：2015-06-23 00:00:00

  • In vivo imaging of specific drug-target binding at subcellular resolution.

    abstract：:The possibility of measuring binding of small-molecule drugs to desired targets in live cells could provide a better understanding of drug action. However, current approaches mostly yield static data, require lysis or rely on indirect assays and thus often provide an incomplete understanding of drug action. Here, we p...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms4946

    authors： Dubach JM,Vinegoni C,Mazitschek R,Fumene Feruglio P,Cameron LA,Weissleder R

    更新日期：2014-05-28 00:00:00

  • Composite-pulse magnetometry with a solid-state quantum sensor.

    abstract：:The sensitivity of quantum magnetometer is challenged by control errors and, especially in the solid state, by their short coherence times. Refocusing techniques can overcome these limitations and improve the sensitivity to periodic fields, but they come at the cost of reduced bandwidth and cannot be applied to sense ...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms2375

    authors： Aiello CD,Hirose M,Cappellaro P

    更新日期：2013-01-01 00:00:00

  • Shared heritability and functional enrichment across six solid cancers.

    abstract：:Quantifying the genetic correlation between cancers can provide important insights into the mechanisms driving cancer etiology. Using genome-wide association study summary statistics across six cancer types based on a total of 296,215 cases and 301,319 controls of European ancestry, here we estimate the pair-wise gene...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/s41467-018-08054-4

    authors： Jiang X,Finucane HK,Schumacher FR,Schmit SL,Tyrer JP,Han Y,Michailidou K,Lesseur C,Kuchenbaecker KB,Dennis J,Conti DV,Casey G,Gaudet MM,Huyghe JR,Albanes D,Aldrich MC,Andrew AS,Andrulis IL,Anton-Culver H,Antoniou AC

    更新日期：2019-01-25 00:00:00

  • Electron spin control of optically levitated nanodiamonds in vacuum.

    abstract：:Electron spins of diamond nitrogen-vacancy (NV) centres are important quantum resources for nanoscale sensing and quantum information. Combining NV spins with levitated optomechanical resonators will provide a hybrid quantum system for novel applications. Here we optically levitate a nanodiamond and demonstrate electr...

    journal_title：Nature communications

    pub_type： 杂志文章

    doi：10.1038/ncomms12250

    authors： Hoang TM,Ahn J,Bang J,Li T

    更新日期：2016-07-19 00:00:00