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SMXL5 attenuates strigolactone signaling in Arabidopsis thaliana by inhibiting SMXL7 degradation

Molecular Plant 2024年第4期17卷 631-647页

作者： Qingtian Li Haiyang Yu wenwen Chang Sunhyun Chang Michael Guzman Lionel Faure Eva-Sophie wallner Heqin Yan Thomas Greb Lei wang Ruifeng Yao david C.Nelson Department of Botany and Plant Sciences University of CaliforniaRiversideRiversideCA 2521USA Yazhouwan National Laboratory Sanya 572025China Hainan Seed Industry Laboratory Sanya 57205China State Key Laboratory of Chemo/Biosensing and Chemometrics Hunan Provincial Key Laboratory of Plant Functional Genomics and Developmental RegulationCollege of BiologyHunan UniversityChangsha 410082China Key Laboratory of Seed Innovation Center for Agricultural Resources ResearchInstitute of Genetics and Developmental BiologyChinese Academy of SciencesShijiazhuangHebei 050021China University of Chinese Academy of Sciences Beijing 10004China School of the Sciences Biology DivisionTexas Woman’s UniversityDentonTX 76204USA Centre for Organismal Studies(COS) Heidelberg University6120 HeidelbergGermany

Hormone-activated proteolysis is a recurring theme of plant hormone signaling *** strigolactone signaling,the enzyme receptor DwARF14(D14)and an F-box protein,MORE AXILLARY GROwTH2(MAX2),mark SUPPRESSOR OF MAX21-LIKE(SMXL)family proteins SMXL6,SMXL7,and SMXL8 for rapid *** of these transcriptional corepressors initiates downstream growth *** homologous proteins SMXL3,SMXL4,and SMXL5,however,are resistant to MAX2-mediated *** discovered that the smxl4 smxl5 mutant has enhanced responses to ***5 attenuates strigolactone signaling by interfering with AtD14-SMXL7 ***5 interacts with AtD14 and SMXL7,providing two possible ways to inhibit SMXL7 ***5 function is partially dependent on an ethylene-responsive-element binding-factor-associated amphiphilic repression(EAR)motif,which typically mediates interactions with the TOPLESS family of transcriptional ***,we found that loss of the EAR motif reduces SMXL5-SMXL7 interactions and the attenuation of strigolactone signaling by *** hypothesize that integration of SMXL5 into heteromeric SMXL complexes reduces the susceptibility of SMXL6/7/8 proteins to strigolactone-activated degradation and that the EAR motif promotes the formation or stability of these *** mechanism may provide a way to spatially or temporally fine-tune strigolactone signaling through the regulation of SMXL5 expression or translation.

关键词： Arabidopsis typically inhibiting

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APIR:Aggregating Universal Proteomics Database Search Algorithms for Peptide Identification with FDR Control

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Genomics, Proteomics & Bioinformatics 2024年第2期22卷 171-187页

作者： Yiling Elaine Chen Xinzhou Ge Kyla woyshner MeiLu McDermott Antigoni Manousopoulou Scott B.Ficarro Jarrod A.Marto Kexin Li Leo david wang Jingyi Jessica Li Department of Statistics and Data Science University of CaliforniaLos AngelesCA 90095USA Department of Immuno-Oncology Beckman Research InstituteCity of Hope National Medical CenterDuarteCA 91010USA Department of Quantitative and Computational Biology University of Southern CaliforniaLos AngelesCA 90089USA Department of Cancer Biology and Blais Proteomics Center Dana-Farber Cancer InstituteDepartment of PathologyBrigham and Women’s Hospital and Harvard Medical SchoolBostonMA 02215USA Department of Pediatrics City of Hope National Medical CenterDuarteCA 91010USA Bioinformatics Interdepartmental Program University of CaliforniaLos AngelesCA 90095USA Department of Human Genetics University of CaliforniaLos AngelesCA 90095USA Department of Computational Medicine University of CaliforniaLos AngelesCA 90095USA Department of Biostatistics University of CaliforniaLos AngelesCA 90095USA

Advances in mass spectrometry(MS)have enabled high-throughput analysis of proteomes in biological *** state-of-the-art MS data analysis relies on database search algorithms to quantify proteins by identifying peptide–spectrum matches(PSMs),which convert mass spectra to peptide *** database search algorithms use distinct search strategies and thus may identify unique ***,no existing approaches can aggregate all user-specified database search algorithms with a guaranteed increase in the number of identified peptides and a control on the false discovery rate(FDR).To fill in this gap,we proposed a statistical framework,Aggregation of Peptide Identification Results(APIR),that is universally compatible with all database search ***,under an FDR threshold,APIR is guaranteed to identify at least as many,if not more,peptides as individual database search algorithms *** of APIR on a complex proteomics standard dataset showed that APIR outpowers individual database search algorithms and empirically controls the *** data studies showed that APIR can identify disease-related proteins and post-translational modifications missed by some individual database search *** APIR framework is easily extendable to aggregating discoveries made by multiple algorithms in other high-throughput biomedical data analysis,e.g.,differential gene expression analysis on RNA sequencing *** APIR R package is available at https://***/yiling0210/APIR.

关键词： Shotgun proteomics Peptide–spectrum match Peptide identification Aggregation of lists FDR control

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Competition and the evolution of imperfect mimicry

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Current Zoology 2012年第4期58卷 608-619页

作者： david w. PFENNIG david w. KIKUCHI Department of Biology University of North Carolina Chapel Hill NC 27599-3280 USA

Mimicry is widely used to exemplify natural selection＇s power in promoting adaptation. Nonetheless, it has become increasingly clear that mimicry is frequently imprecise. Indeed, the phenotypic match is often poor between mimics and models in many Batesian mimicry complexes and among co-mimics in many Mtillerian mimicry complexes. Here, we consider whether such imperfect mimicry represents an evolutionary compromise between predator-mediated selection favoring mimetic conver- gence on the one hand and competitively mediated selection favoring divergence on the other hand. Specifically, for mimicry to be effective, mimics and their models/co-mimics should occur together. Yet, co-occurring species that are phenotypically similar often compete for resources, successful reproduction, or both. As an adaptive response to minimize such costly interactions, in-teracting species may diverge phenotypically through an evolutionary process known as character displacement. Such divergence between mimics and their models/co-mimics may thereby result in imperfect mimicry. we review the various ways in which character displacement could promote imprecise mimicry, describe the conditions under which this process may be especially likely to produce imperfect mimicry, examine a possible case study, and discuss avenues for future research. Generally, character displacement may play an underappreciated role in fostering inexact mimicry .

关键词： Batesian mimicry Character displacement Hybridization MtUlerian mimicry Reproductive interference Selectivetrade-off

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A Batesian mimic and its model share color production mechanisms

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Current Zoology 2012年第4期58卷 658-667页

作者： david w. KIKUCHI david w. PFENNIG Department of Biology University of North Carolina at Chapel Hill Chapel Hill NC 27599-3280 USA

Batesian mimics are harmless prey species that resemble dangerous ones （models）, and thus receive protection from predators. How such adaptive resemblances evolve is a classical problem in evolutionary biology. Mimicry is typically thought to be difficult to evolve, especially if the model and mimic produce the convergent phenotype through different proximate mecha- nisms. However, mimicry may evolve more readily if mimic and model share similar pathways for producing the convergent phenotype. In such cases, these pathways can be co-opted in ancestral mimic populations to produce high-fidelity mimicry with- out the need for major evolutionary innovations. Here, we show that a Batesian mimic, the scarlet kingsnake Larnpropeltis elap-soides, produces its coloration using the same physiological mechanisms as does its model, the eastern coral snake Micrurus fulvius. Therefore, precise color mimicry may have been able to evolve easily in this system. Generally, we know relatively little about the proximate mechanisms underlying mimicry .

关键词： Adaptation Coloration Convergent evolution Pteridine Pigment

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周年生物钟:赋予动物预知季节的能力

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Science Bulletin 2024年第12期69卷 1839-1843页

作者：陈君凤吴蔚龙娟刘鑫 david Hazlerigg 詹祥江 Key Laboratory of Animal Ecology and Conservation Biology Institute of ZoologyChinese Academy of SciencesBeijing 100101China University of Chinese Academy of Sciences Beijing 100049China Arctic Seasonal Timekeeping Initiative(ASTI) Department of Arctic and Marine Biology UiTThe Arctic University of NorwayTromsø9037Norway Cardiff University-Institute of Zoology Joint Laboratory for Biocomplexity Research Chinese Academy of SciencesBeijing 100101China Center for Excellence in Animal Evolution and Genetics Chinese Academy of SciencesKunming 650223China

Seasonal changes in climate and animal behaviors have been depicted in Chinese literature since ancient times,such as the classical poem"HuìChóng Ch-un Jiang wǎn Jǐng"by Su *** now know that the intricate interpla... 详细信息

关键词： periodic behaviors 生物钟

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Recombinase-mediated Gene Stacking as a Transformation Operating System

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Journal of Integrative Plant Biology 2011年第7期53卷 512-519页

作者： david w.Ow South China Botanical Garden

The current method for combining transgenes into a genome is through the assortment of independent loci, a classical operating system compatible with transgenic traits created by different developers, at different times and/or through different transformation techniques. However, as the number of transgenic loci increases over time, increasingly larger populations are needed to find the rare individual with the desired assortment of transgenic loci along with the non-transgenic elite traits. Introducing a transgene directly into a field cultivar would bypass the need to introgress the engineered trait. However, this necessitates separate transformations into numerous field cultivars, along with the characterization and regulatory approval of each independent transformation event. Reducing the number of segregating transgenic loci could be achieved if multiple traits are introduced at the same time, a preferred option if each of the many traits is new or requires re-engineering. If reengineering of previously introduced traits is not needed, then appending a new trait to an existing locus would be a rational strategy. The insertion of new DNA at a known locus can be accomplished by site- specific integration, through a host-dependent homology-based process, or a heterologous site-specific recombination system. Here, we discuss gene stacking through the use of site-specific recombinases.

关键词： site-specific recombination transgenic plants DNA integration marker removal Cre-lox

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A Review of the Taxonomy and Palaeoecology of the Anurognathidae(Reptilia,Pterosauria)

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Acta Geologica Sinica(English Edition) 2020年第5期94卷 1676-1692页

作者： david w.E.HONE School of Biological and Chemical Sciences Queen Mary University of LondonLondonE14NSUK

The anurognathids are an enigmatic and distinctive clade of small,non-pterodactyloid pterosaurs with an unusual combination of anatomical traits in the head,neck,wings and *** are known from very limited remains and few have been described in detail,and as a result,much of their biology remains *** is despite their importance as potentially one of the earliest branches of pterosaur evolution or even lying close to the origins of *** review covers the taxonomy and palaeoecology of the anurognathids,which remain an interesting branch of pterosaurian evolution.

关键词： non-pterodactyloid palaeobiology flight Ornithodira

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Beyond the burn: Studies on the physiological effects of flamethrowers during world war Ⅱ

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Military Medical Research 2020年第3期7卷 303-311页

作者： david w.Van wyck 4/3 SFG(A)Bldg Z-4157 South Post Rd Fort BraggNC 28310USA

Flamethrowers are widely considered one of warfare’s most controversial weapons and are capable of inflicting gruesome physical injuries and intense psychological *** being the last of the major combatants in world warⅡ(wwⅡ)to develop them,the *** quickly became the most frequent and adept operator of portable *** gave the *** ample opportunity to observe the effects of flamethrowers on enemy ***,while most people in modern times would consider immolation by flamethrower to be an unnecessarily painful and inhumane way to inflict casualties,immolation was,at one point during wwⅡ,referred to as"mercy killing"by the *** warfare Service(CwS).This mischaracterization arose from a series of firsthand accounts describing what were believed to be quick,painless,and unmarred deaths,as well as from a poor and incomplete understanding of flamethrower *** a result,indirect mechanisms such as hypoxia and carbon monoxide poisoning were generally absent from accounts of the flamethrower’s fatal *** was not until several years after flamethrowers were introduced to the frontlines that the CwS and National Defense Research Committee(NDRC)conducted a series of tests to better understand the physiological and toxicological effects of *** article examines how the initial absence of scientific data on the physiologic effects of flamethrowers led to an inaccurate understanding of their lethality,and bizarre claims that one of history’s most horrific instruments of war was considered one of the more"humane"weapons on the battlefield.

关键词： Flamethrower Burns Carbon monoxide Asphyxiation Hypoxia Chemical warfare

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Modeling and optimization of the cyclic steady state operation of adsorptive reactors

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Chinese Journal of Chemical Engineering 2018年第6期26卷 1321-1329页

作者： Mamoon Hussainy david w.Agar Technical University of Dortmund Faculty of Bio-and Chemical EngineeringLaboratory for Chemical Reaction Engineering

Adsorptive reactors(AR),in which an adsorptive functionality is incorporated into the catalytic reactors,offer enhanced performance over their conventional counterparts due to the effective manipulation of concentration and temperature *** operation of these attractive reactors is,however,inherently unsteady state,complicating the design and operation of such sorption-enhanced *** order to capture,comprehend and capitalize upon the rich dynamic texture of adsorptive reactors,it is necessary to employ cyclic steady state algorithms describing the entire reaction-adsorption/desorption *** stability of this cyclic steady state is of great importance for the design and operation of adsorptive *** this paper,the cyclic steady state of previously proposed novel adsorptive reactor designs has been calculated and then optimized to give maximum space–time *** results obtained revealed unambiguously that an improvement potential of up to multifold level could be attained under the optimized cyclic steady state *** additional improvement resulted from the reduction of the regeneration time well below the reaction-adsorption time,which means,in turn,more space–time yield.

关键词： Adsorptive reactors Multifunctional reactors Cyclic steady state Claus reaction Deacon reaction

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More than mimicry？ Evaluating scope for flicker-fusion as a defensive strategy in coral snake mimics

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Current Zoology 2014年第1期60卷 123-130页

作者： Georgia C. TITCOMB david w. KIKUCHI david w. PFENNIG Department of Biology University of North Carolina at Chapel Hill Chapel Hill NC 27599-3280

Coral snakes and their mimics often have brightly colored banded patterns, generally associated with warning colora- tion or mimicry. However, such color patterns have also been hypothesized to aid snakes in escaping predators through a ＂flicker-fusion＂ effect. According to this hypothesis, banded color patterns confuse potential predators when a snake transitions from resting to moving because its bands blur together to form a different color. To produce this motion blur, a moving snake＇s bands must transition faster than the critical flicker-fusion rate at which a predator＇s photoreceptors can refresh. It is unknown if coral snakes or their mimics meet this requirement. we tested this hypothesis by measuring the movement speed and color pat- terns of two coral snake mimics, Lampropeltis triangulum campbelli and L. elapsoides, and comparing the frequency of color transitions to the photoreceptor activity of the avian eye. we found that snakes often produced a motion blur, but moving snakes created a blurring effect more often in darker conditions, such as sunrise, sunset, and nighttime when these snakes are often active. Thus, at least two species of coral snake mimics are capable of achieving flicker-fusion, indicating that their color patterns may confer an additional defense aside from mimicry

关键词： Coral snake mimicry Flicker-fusion effect CFF Kingsnake Defensive strategy

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