DNA assembly for plant biology: techniques and tools.


:As the speed and accuracy of genome sequencing improves, there are ever-increasing resources available for the design and construction of synthetic DNA parts. These can be used to engineer plant genomes to produce new functions or to elucidate the function of endogenous sequences. Until recently the assembly of amplified or cloned sequences into large and complex designs was a limiting step in plant synthetic biology and biotechnology. A number of new methods for assembling DNA molecules have been developed in the last few years, several of which have been applied to the production of molecules used to modify plant genomes.


Curr Opin Plant Biol


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2014-06-01 00:00:00












  • Novel metabolism in Chlamydomonas through the lens of genomics.

    abstract::Chlamydomonas has traditionally been exploited as an organism that is associated with sophisticated physiological, genetic and molecular analyses, all of which have been used to elucidate several biological processes, especially photosynthesis and flagella function and assembly. Recently, the genomics of Chlamydomonas...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Grossman AR,Croft M,Gladyshev VN,Merchant SS,Posewitz MC,Prochnik S,Spalding MH

    更新日期:2007-04-01 00:00:00

  • Living inside plants: bacterial endophytes.

    abstract::As current research activities have focused on symbiotic or parasitic plant-microbe interactions, other types of associations between plants and microorganisms are often overlooked. Endophytic bacteria colonize inner host tissues, sometimes in high numbers, without damaging the host or eliciting strong defense respons...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Reinhold-Hurek B,Hurek T

    更新日期:2011-08-01 00:00:00

  • Organization out of disorder: liquid-liquid phase separation in plants.

    abstract::Membraneless compartments are formed from the dynamic physical association of proteins and RNAs through liquid-liquid phase separation, and have recently emerged as an exciting new mechanism to explain the dynamic organization of biochemical processes in the cell. In this review, we provide an overview of the current ...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Cuevas-Velazquez CL,Dinneny JR

    更新日期:2018-10-01 00:00:00

  • Understanding the development and evolution of novel floral form in Aquilegia.

    abstract::Flowers of the lower eudicot Aquilegia (columbine) possess morphological innovations, namely elaborate petal spurs and a fifth distinct organ identity, the staminodium, that are well suited to the investigation of key questions in developmental evolution. The recent evolution of these characteristics combined with a g...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Sharma B,Yant L,Hodges SA,Kramer EM

    更新日期:2014-02-01 00:00:00

  • Big roles for small RNAs in polyploidy, hybrid vigor, and hybrid incompatibility.

    abstract::Small RNAs, including microRNAs (miRNAs), small interfering RNAs (siRNAs), and trans-acting siRNAs (ta-siRNAs), mediate gene expression and epigenetic regulation. While siRNAs are highly diverged, miRNAs and ta-siRNAs are generally conserved but many are differentially expressed between related species and in interspe...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Ng DW,Lu J,Chen ZJ

    更新日期:2012-04-01 00:00:00

  • Sugars as signaling molecules.

    abstract::Recent studies indicate that, in a manner similar to classical plant hormones, sugars can act as signaling molecules that control gene expression and developmental processes in plants. Crucial evidence includes uncoupling glucose signaling from its metabolism, identification of glucose sensors, and isolation and chara...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Sheen J,Zhou L,Jang JC

    更新日期:1999-10-01 00:00:00

  • The retinoblastoma pathway in plant cell cycle and development.

    abstract::The activity of cyclin-dependent kinases (CDKs) on specific targets mediates the temporal regulation of plant cell cycle transitions. The sequential activity of CDKs and the spatial regulation of cell proliferation during plant development, however, are still poorly understood. Understanding these aspects depends on t...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Gutierrez C

    更新日期:1998-12-01 00:00:00

  • Endosperm: the crossroad of seed development.

    abstract::The endosperm is an essential part of the seed that sustains embryo development and reserve storage. Several genes that are involved in endosperm differentiation and that have domains of expression arranged along a conserved antero-posterior axis have been isolated in Arabidopsis and in cereals. Endosperm polarity is ...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Berger F

    更新日期:2003-02-01 00:00:00

  • More lessons from linalool: insights gained from a ubiquitous floral volatile.

    abstract::Linalool (3,7-dimethyl-1,6-octadien-3-ol) is a common floral volatile with two distinct enantiomers and related metabolites involved in the full spectrum of plant-pollinator interactions. Recent studies reveal a complex interplay between pollinator attraction and plant defense mediated by linalool and its derivatives,...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Raguso RA

    更新日期:2016-08-01 00:00:00

  • Tip of the trichome: evolution of acylsugar metabolic diversity in Solanaceae.

    abstract::Acylsugars are insecticidal plant specialized metabolites produced in the Solanaceae (nightshade family). Despite having simple constituents, these compounds are unusually structurally diverse. Their structural variations in phylogenetically closely related species enable comparative biochemical approaches to understa...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Fan P,Leong BJ,Last RL

    更新日期:2019-06-01 00:00:00

  • Type III effector proteins: doppelgangers of bacterial virulence.

    abstract::Bacterial pathogens have co-evolved with their hosts in their ongoing quest for advantage in the resulting interaction. These intimate associations have resulted in remarkable adaptations of prokaryotic virulence proteins and their eukaryotic molecular targets. An important strategy used by microbial pathogens of anim...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Desveaux D,Singer AU,Dangl JL

    更新日期:2006-08-01 00:00:00

  • Suberin--a biopolyester forming apoplastic plant interfaces.

    abstract::Suberized cell walls form physiologically important plant-environment interfaces because they act as barriers that limit water and nutrient transport and protect plants from invasion by pathogens. Plants respond to environmental stimuli by modifying the degree of suberization in root cell walls. Salt stress or drought...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Franke R,Schreiber L

    更新日期:2007-06-01 00:00:00

  • The INs and OUTs of pattern recognition receptors at the cell surface.

    abstract::Pattern recognition receptors (PRRs) enable plants to sense non-self molecules displayed by microbes to mount proper defense responses or establish symbiosis. In recent years the importance of PRR subcellular trafficking to plant immunity has become apparent. PRRs traffic through the endoplasmatic reticulum (ER) and t...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Beck M,Heard W,Mbengue M,Robatzek S

    更新日期:2012-08-01 00:00:00

  • The evolutionary dynamics of plant duplicate genes.

    abstract::Given the prevalence of duplicate genes and genomes in plant species, the study of their evolutionary dynamics has been a focus of study in plant evolutionary genetics over the past two decades. The past few years have been a particularly exciting time because recent theoretical and experimental investigations have le...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Moore RC,Purugganan MD

    更新日期:2005-04-01 00:00:00

  • Regulation of the mitochondrial tricarboxylic acid cycle.

    abstract::Recent years have seen considerable advances in our understanding of the particular physiological roles of the constituent enzymes of the tricarboxylic acid (TCA) cycle. Despite acquiring a fairly comprehensive overview of the functional importance of these proteins relatively little is known concerning how this impor...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Nunes-Nesi A,Araújo WL,Obata T,Fernie AR

    更新日期:2013-06-01 00:00:00

  • The Rumsfeld paradox: some of the things we know that we don't know about plant virus infection.

    abstract::Plant-infecting viruses cause significant crop losses around the world and the majority of emerging threats to crop production have a viral etiology. Significant progress has been made and continues to be made in understanding how viruses induce disease and overcome some forms of resistance-particularly resistance bas...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Palukaitis P,Groen SC,Carr JP

    更新日期:2013-08-01 00:00:00

  • Brassinosteroid signal transduction: still casting the actors.

    abstract::Significant advances in the genetic dissection of brassinosteroid biosynthesis and signaling have been made during the past few years. Genetic and biochemical data have helped to elucidate the pathways of biosynthesis of brassinolide, the most active brassinosteroid. In addition, several models have been put forward f...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Schumacher K,Chory J

    更新日期:2000-02-01 00:00:00

  • Formation of primordia and phyllotaxy.

    abstract::Leaves are made in an iterative pattern by the shoot apical meristem. The mechanism of this pattern formation has fascinated biologists, mathematicians and poets for centuries. Over the past year, fundamental insights into the molecular basis of this process have been gained. Patterns of auxin polar transport dictate ...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Fleming AJ

    更新日期:2005-02-01 00:00:00

  • Transcriptional regulation by complex interplay between post-translational modifications.

    abstract::Transcriptional reprogramming in response to developmental changes or environmental inputs is regulated by a wide variety of transcription factors and cofactors. In plants, the stability of many transcriptional regulators is mediated by the ubiquitin-mediated proteasome. Recent reports suggest that additional post-tra...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Skelly MJ,Frungillo L,Spoel SH

    更新日期:2016-10-01 00:00:00

  • Plant genome sequences: past, present, future.

    abstract::The green plants (Viridiplantae) are an essential kingdom of life, responsible via photosynthesis for the majority of global primary production, and directly utilized by humankind for nutrition, animal feed, fuel, clothing, medicine and other purposes. There are an estimated 391 000 species of land plants, in addition...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Kersey PJ

    更新日期:2019-04-01 00:00:00

  • Plant-based material, protein and biodegradable plastic.

    abstract::Fibrous proteins from spiders, proteins with synthetic multiple repeats and mammalian structural proteins such as collagen have been produced in transgenic plants. Recent advances in the production of biodegradable plastic in plants also show the potential of molecular farming for research into and production of mater...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Scheller J,Conrad U

    更新日期:2005-04-01 00:00:00

  • Tuning growth to the environmental demands.

    abstract::When plants encounter adverse environmental conditions, they often respond by modifying their growth patterns. This growth response tunes morphogenesis with environmental demands and allows plants to prioritize stress response over growth. The underlying molecular mechanism involves an active reprogramming of cell pro...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Rymen B,Sugimoto K

    更新日期:2012-12-01 00:00:00

  • How filamentous plant pathogen effectors are translocated to host cells.

    abstract::The interaction of microbes with "signature" plants is largely governed by secreted effector proteins, which serve to dampen plant defense responses and modulate host cell processes. Secreted effectors can function either in the apoplast or within plant cell compartments. How oomycetes and fungi translocate their effe...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Lo Presti L,Kahmann R

    更新日期:2017-08-01 00:00:00

  • Network-assisted crop systems genetics: network inference and integrative analysis.

    abstract::Although next-generation sequencing (NGS) technology has enabled the decoding of many crop species genomes, most of the underlying genetic components for economically important crop traits remain to be determined. Network approaches have proven useful for the study of the reference plant, Arabidopsis thaliana, and the...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Lee T,Kim H,Lee I

    更新日期:2015-04-01 00:00:00

  • Contrasted evolutionary trajectories of plant transcription factors.

    abstract::Because of their prominent roles in plant development, transcription factors (TF) play central roles as drivers of innovation in the evolution of the green lineage (viridiplantae). The advent of massive sequencing combined with comparative genetics/genomics allows a rigorous investigation of how TF families have contr...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Lai X,Chahtane H,Martin-Arevalillo R,Zubieta C,Parcy F

    更新日期:2020-04-01 00:00:00

  • Genome instability and epigenetic modification--heritable responses to environmental stress?

    abstract::As sessile organisms, plants need to continuously adjust their responses to external stimuli to cope with changing growth conditions. Since the seed dispersal range is often rather limited, exposure of progeny to the growth conditions of parents is very probable. The plasticity of plant phenotypes cannot be simply exp...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Boyko A,Kovalchuk I

    更新日期:2011-06-01 00:00:00

  • Something ancient and something neofunctionalized-evolution of land plant hormone signaling pathways.

    abstract::The evolution of land plants from a charophycean algal ancestor was accompanied by an increased diversity of regulatory networks, including signaling pathways mediating cellular communication within plants and between plants and the environment. Canonical land plant hormone signaling pathways were originally identifie...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Bowman JL,Briginshaw LN,Fisher TJ,Flores-Sandoval E

    更新日期:2019-02-01 00:00:00

  • Microtubule nucleation and organization without centrosomes.

    abstract::Centrosomes play various critical roles in animal cells such as microtubule nucleation and stabilization, mitotic spindle morphogenesis, and spindle orientation. Land plants have lost centrosomes and yet must execute many of these functions. Recent studies have revealed the crucial roles played by morphologically dist...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Yi P,Goshima G

    更新日期:2018-12-01 00:00:00

  • Ionomics: studying the social network of mineral nutrients.

    abstract::The accumulation of a given element is a complex process controlled by a network of gene products critical for uptake, binding, transportation, and sequestration. Many of these genes and physiological processes affect more than one element. Therefore, to understand how elements are regulated, it is necessary to measur...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Baxter I

    更新日期:2009-06-01 00:00:00

  • Root border cells and secretions as critical elements in plant host defense.

    abstract::Border cells and border-like cells are released from the root tip as individual cells and small aggregates, or as a group of attached cells. These are viable components of the root system that play a key role in controlling root interaction with living microbes of the rhizosphere. As their separation from root tip pro...

    journal_title:Current opinion in plant biology

    pub_type: 杂志文章,评审


    authors: Driouich A,Follet-Gueye ML,Vicré-Gibouin M,Hawes M

    更新日期:2013-08-01 00:00:00