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Degradation of gaseous hydrocarbons in aerated stirred bioreactors inoculated with Rhodococcus erythropolis:Effect of the carbon source and SIFT-MS method development

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Journal of Environmental Sciences 2025年第1期147卷 268-281页

作者： Paula Alejandra Lamprea Pineda Kristof Demeestere Allan Augusto Alvarado-Alvarado Frank Devlieghere Nico Boon Herman Van Langenhove Christophe Walgraeve Research group EnVOC Department of Green Chemistry and TechnologyFaculty of Bioscience EngineeringGhent UniversityCoupure Links 6539000Ghent Belgium Research group FMFP Department of Food TechnologySafety and HealthFaculty of Bioscience EngineeringGhent UniversityCoupure Links 6539000Ghent Belgium Center for microbial ecology and Technology-CMET Department of BiotechnologyFaculty of Bioscience EngineeringGhent UniversityCoupure Links 6539000Ghent Belgium

The study of microbial hydrocarbons removal is of great importance for the development of future bioremediation *** this study,we evaluated the removal of a gaseous mixture containing toluene,m-xylene,ethylbenzene,cyclohexane,butane,pentane,hexane and heptane in aerated stirred bioreactors inoculated with Rhodococcus erythropolis and operated under non-sterile *** the real-time measurement of hydrocarbons,a novel systematic approachwas implemented using Selected-Ion Flow TubeMass Spectrometry(SIFTMS).The effect of the carbon source(~9.5 ppmv)on(i)the bioreactors’performance(BR1:dosed with only cyclohexane as a single hydrocarbon versus BR2:dosed with a mixture of the 8 hydrocarbons)and(ii)the evolution of microbial communities over time were *** results showed that cyclohexane reached a maximum removal efficiency(RE)of 53%±4%in *** BR2,almost complete removal of toluene,m-xylene and ethylbenzene,being the most water-soluble and easy-to-degrade carbon sources,was *** below 32%were obtained for the remaining *** exposing the microbial consortium to only the five most recalcitrant hydrocarbons,REs between 45%±5%and 98%±1%were *** addition,we observed that airborne microorganisms populated the bioreactors and that the type of carbon source influenced the microbial communities *** abundance of species belonging to the genus Rhodococcus was below 10%in all bioreactors at the end of the *** work provides fundamental insights to understand the complex behavior of gaseous hydrocarbon mixtures in bioreactors,along with a systematic approach for the development of SIFT-MS methods.

关键词： Hydrocarbons SIFT-MS Rhodococcus erythropolis Biodegradation Bioreactors

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Genome-wide identification of yellow gene family in Hermetia illucens and functional analysis of yellow-y by CRISPR/Cas9

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Insect Science 2025年第1期32卷 115-126页

作者： Yongcheng Dong Xiaomiao Xu Lansa Qian Zongqing Kou Awawing A.Andongma Lijun Zhou Yongping Huang Yaohui Wang Key Laboratory of Biology and Sustainable Management of Plant Diseases and Pests of Anhui Higher Education Insttutes College of Plant ProtectionAnhui Agricultural UniversityHefeiChina Chinese Academy of Sciences(CAS)Key Laboratory of Insect Developmental and Evolutionary Biology CAS Center for Excellence in Molecular Plant SciencesCASShanghaiChina Insect and Parasite ecology group Lancaster Environment CentreLancaster UniversityLancasterUK School of Environmental Science and Engineering Shanghai Jiao Tong UniversityShanghaiChina

The yellow gene family plays a crucial role in insect *** has potential for use as a visible marker gene in genetic manipulation and transgenic engineering in several model and non-model ***,yellow genes have rarely been identified in Stratiomyidae species and the functions of yellow genes are relatively *** the present study,we first manually annotated and curated 10 yellow genes in the black soldier fly(BSF),Hermetia illucens(Stratiomyidae).Then,the conserved amino acids in the major royal jelly proteins(MRJPs)domain,structural architecture and phylogenetic relationship of yellow genes in BSF were *** found that the BSF yellow-y,yellow-c and yellow-f genes are expressed at all developmental stages,especially in the prepupal *** the clustered regularly interspaced short palindromic repeats(CRISPR)/CRISPR-associated protein 9(Cas9)system,we successfully disrupted yellow-y,yellow-c and yellow-f in the ***,the mutation of yellow-y clearly resulted in a pale-yellow body color in prepupae,pupae and adults,instead of the typical black body color of the wild ***,the mutation of yellow-c or yellow-f genes did not result in any change in color of the insects,when compared with the wild *** study indicates that the BSF yellow-y gene plays a role in body pigmentation,providing an optimal marker gene for the genetic manipulation of BSF.

关键词： CRISPR-Cas9 Hermetia illucens pigmentation yellow family yellow-y

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Effect of methamidophos on soil fungi community in microcosms by plate count,DGGE and clone library analysis

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Journal of Environmental Sciences 2008年第5期20卷 619-625页

作者： LI Xinyu ZHANG Huiwen WU Minna ZHANG Yan ZHANG Chenggang microbial Resources and ecology group Institute of Applied ecology Chinese Academy of Sciences Shenyang 110016 China

Methamidophos was widely used a pesticide in northern China. The potential influences of methamidophos on soil fungal community in black soil were assessed by plate count, 28S rDNA-PCR-DGGE, and clone library analysis. Three methamidophos levels （50, 150, and 250 mg/kg） were tested in soil microcosms. Results from plate count during a 60-d microcosm experiment showed that high concentrations of methamidophos （250 mg/kg） could significantly stimulate fungal populations. DGGE （denaturing gradient gel electrophoresis） fingerprinting patterns showed a significant difference between the responses of culturable and total fungi communities under the stress of methamidophos. Shannon diversity indices calculated from DGGE profiles indicated that culturable fungi in all microcosms with methamidophos treatment increased after 1 week of incubation. However, the diversity indices of total fungi decreased in the first week, as compared to the stimulation of culturable fungi. At the 8th week, however, all the microcosms treated by methamidophos were similar to the control microcosms in community structure as suggested by the Shannon diversity indices for both culturable and total fungi. In contrast, after 1 week the fungal structure of culturable and unculturable both were disturbed to different extent under the stresses of methamidophos by clustering analysis. Clone sequencing analysis indicated the stimulation of pathogenic and unculturable fungal populations by methamidophos treatment, suggetsing potential risks of plant disease outbreak.

关键词： methamidophos clone sequencing DGGE (denaturing gradient gel electrophoresis) fungi diversity

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Foraging valor linked with aggression:selection against completely abandoning aggression in the high-elevation ant Tetramorium alpestre?

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Insect Science 2024年第3期31卷 953-970页

作者： Marie-Luise Contala Patrick Krapf Florian M.Steiner Birgit C.Schlick-Steiner molecular ecology group Department of EcologyUniversitat InnsbruckInnsbruckAustria rganismal&Evolutionary Biology Research Programme University of HelsinkiHelsinkiFinland

Aggression has multiple benefits and is often coupled with other behaviors("behavioral syndromes").The level of aggressiveness is influenced by an adaptive benefit-cost ratio suggesting that benefits should outweigh the costs of ***,we assess if several behaviors are coupled in two behaviorally different populations(aggressive,peaceful)of the high-elevation ant Tetramorium *** three weeks,we collected colony fragments and analyzed boldness,exploring,foraging,and risk-taking *** hypothesized that the aggressive population is bolder,more explorative and risk-prone,and forages more food than the peaceful *** test whether(a)the combination of experiments and parameters used yields a good setup,(b)populations differ behaviorally,and(c)populations display behavioral syndromes,we assessed(a)the frequency of repeatable behaviors of each experiment,(b)the behavioral means among populations,and(c)the behavioral repeatability,*** found that(a)boldness and exploring were most repeatable and represent a good experimental setup,(b)the aggressive population was bolder and more explorative and risk-prone than the peaceful population,(c)boldness and exploring behaviors were highly repeatable in both populations,thus corroborating our *** results suggest that boldness,exploring,and risk-taking but not foraging are presumably coupled with aggression and indicate the presence of behavioral syndromes in this *** specific ecological conditions,aggression may be coupled with other behaviors and important for finding *** is probably adaptive in ***,possibly indicating that selection favors aggression at least partially,which may counteract the complete loss of intraspecific aggression.

关键词： adaptive value behavioral syndromes boldness exploration repeatability trade-off

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Mutual mate choice in the Asiatic toad, Bufo gargarizans,exerts stabilizing selection on body size

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Chinese Science Bulletin 2014年第1期59卷 38-45页

作者： Zhenhua Luo Chenliang Li Hui Wang Mian Zhao Qi Gu Zhirong Gu Chunlin Liao Hua Wu molecular and Behavioural ecology Research group College of Life Sciences Central China Normal University Badagongshan National Nature Reserve

Sexual selection is critical to both reproduction and *** effects of male–male competition and female choice regarding body size have been examined in a large number of taxa,including toad *** and females have different optimal reproductive strategies,achieving breeding advantages in discrepant ***,the relative contributions of intra-and inter-sexual size selection vary among ***,to understand the mechanisms affecting mating success,it is important to consider both male–male and male–female interactions simultaneously and elucidate their *** this study,we measured body sizes of all mated and unmated individuals in a population of Asiatic toad(Bufo gargarizans)and counted fertilized eggs of several *** on correlation and regression techniques,we tested for female choice and intra-sexual competition among males relative to body size gradients,and we compared the relative importance of these two processes for mating *** results reveal that male–male competition and female choice simultaneously contribute to sexual selection in ***,both interactions are most intense among smaller *** synergistic trends of male–male competition and female choice support the mutual mate choice hypothesis and works to stabilize body size in *** distributions of breeding success relative to body size were detected for both sexes,suggesting that medium-sized individuals enjoy a reproductive advantage in the population studied.

关键词：车身尺寸蟾蜍亚洲择偶稳定繁殖成功率繁殖策略竞争性

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Are nuclear loci ideal for barcoding plants? A case study of genetic delimitation of two sister species using multiple loci and multiple intraspecific individuals

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Journal of Systematics and Evolution 2011年第3期49卷 182-188页

作者： 1Qian WANG 1,2Qiu-Shi YU 1Jian-Quan LIU* 1(molecular ecology group,Key Laboratory of Arid and Grassland ecology,College of Life Sciences,Lanzhou University,Lanzhou 730000,China) 2(State Key Laboratory Breeding Base of Desertification and Aeolian Sand Disaster Combating,Gansu Desert Control Research Institute,Lanzhou 730070,China) (molecular ecology group Key Laboratory of Arid and Grassland Ecology College of Life Sciences Lanzhou University Lanzhou 730000 China) (State Key Laboratory Breeding Base of Desertification and Aeolian Sand Disaster Combating Gansu Desert Control Research Institute Lanzhou 730070 China)

Considerable debate remains as to which DNA region should be used to barcode *** different chloroplast(cp) DNA regions(rbcL,matK,and trnH-psbA) and nuclear ribosomal internal transcribed regions(ITS) have been suggested as suitable barcodes in ***,low-copy nuclear loci were also suggested to be potentially ideal barcode *** aim of the present study was to test the effectiveness of these proposed DNA fragments and five additional low-copy loci(CHS,DET1,COP1,PGIC1,and RPS2;comprising both coding and non-coding regions) in barcoding closely related *** examined the divergences within and between two species of Pugionium(Brassicaceae).We failed to find any interspecific variation from three cpDNA fragments with which to discriminate the two ***,a single base mutation in the internal transcribed spacer(ITS) could discriminate between the two species *** found more variations among all individuals of the two species using each of the other five low-copy nuclear ***,only alleles from one locus(DET1) of the five low-copy loci related to ?owering regulations was able to distinguish the sampled individuals into two *** failed to amplify the corresponding fragments out of Brassicaceae using the designed DET1 *** further discussed the discrimination power of different loci due to incomplete lineage sorting,gene ?ow,and species-specific *** results highlight the possibility of using the nuclear ITS as a core or complementary fragment to barcode recent diverged species.

关键词： chloroplast DNA DNA barcoding internal transcribed spacer(ITS) low-copy nuclear loci Pugionium.

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DNA chip-based expression profile analysis indicates involvement of the phosphatidylinositol signaling pathway in multiple plant responses to hormone and abiotic treatments

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Cell Research 2004年第1期14卷 34-45页

作者： Wen Hui LIN, Rui YE, Hui MA, Zhi Hong XU, Hong Wei XUE National Laboratory of Plant molecular Genetics, Institute of Plant Physiology and ecology, Shanghai Institutes for Biological Sciences (SIBS), Chinese Academy of Sciences and Partner group of Max-Planck-Institute of molecular Plant Physiology (MPI-MP) on "Plant molecular Physiology and Signal Transduction", 300 Fenglin Road, 200032 Shanghai, China National Laboratory of Plant molecular Genetics Institute of Plant Physiology and Ecology Shanghai Institutes for Biological Sciences (SIBS) Chinese Academy of Sciences Partner group of Max-Planck-Institute of molecular Plant Physiology (MPI-MP) on “Plant molecular Physiology and Signal Transduction” Shanghai China

The phosphatidylinositol (PI) metabolic pathway is considered critical in plant responses to many environmental factors, and previous studies have indicated the involvement of multiple PI-related gene families during cellular responses. Through a detailed analysis of the Arabidopsis thaliana genome, 82 polypeptides were identified as being involved in PI signaling. These could be grouped into different families including PI synthases (PIS), PI-phosphate kinases (PIPK), phospholipases (PL), inositol polyphosphate phosphatases (IPPase), inositol polyphosphate kinases (IPK), PI transfer proteins and putative inositol polyphosphate receptors. The presence of more than 10 isoforms of PIPK, PLC, PLD and IPPase suggested that these genes might be differentially expressed during plant cellular responses or growth and development. Accordingly, DNA chip technology was employed to study the expression patterns of various isoforms. In total, 79 mRNA clones were amplified and used for DNA chip generation. Expression

关键词： phosphatidylinositol signal transduction DNA chip expression profile.

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Hard life for sons in the nest?Sex-dependent offspring mortality in Great Tits in urban and forest areas

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Avian Research 2024年第1期15卷 91-97页

作者： Nora Agh Henriett Anna Dalvári Krisztián Szabó Ivett Pipoly András Liker HUN-REN-PE Evolutionary ecology Research group University of PannoniaH-8200VeszpremPf.1158.Hungary Behavioral ecology Research group Center for Natural SciencesUniversity of PannoniaH-8200Pf.1158.VeszpremHungary molecular ecology Research group Department of EcologyUniversity of Veterinary Medicine BudapestH-1400Pf.2.BudapestHungary Synlab Hungary Ltd. H-1211Weiss Manfr´ed Str.5-7BudapestHungary

Sex-biased mortality can occur in birds during development,for example due to sexual differences in energy requirement and/or environmental sensitivity,or the effects of sex hormones or sex differences in the expression of mutations linked to sex *** extent of sex-bias in mortality may also be related to environmental conditions that influence offspring development and *** areas often provide poorer conditions for nestling development resulting in higher offspring mortality compared to natural areas,which may accelerate sex differences in offspring mortality in *** test this hypothesis,we examined the sex ratio of dead offspring in Great Tits(Parus major),using 427 samples of unhatched eggs and dead nestlings collected in two urban and two forest sites between 2013 and *** ratio of males in the whole sample of dead offspring(56.9%)was significantly higher than expected by an 1:1 ratio,and the strongest sex biases were detected in urban areas(57.6%males)and in young nestlings(<14 days old,59.0%males).However,the sex ratios of dead offspring did not differ significantly among study sites and between offspring developmental stages.29.3%of unhatched eggs contained a visible embryo,and the proportion of embryo-containing unhatched eggs did not differ significantly between urban and forest study *** results suggest male-biased offspring mortality in Great Tits,and highlight the need of large datasets to detect subtle differences between habitats and developmental stages.

关键词： Great Tit Urbanization Nestling mortality Sex related differences

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Regulation and integration of plant jasmonate signaling:a comparative view of monocot and dicot

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Journal of Genetics and Genomics 2022年第8期49卷 704-714页

作者： Shiwei Wan Xiu-Fang Xin National Key Laboratory of Plant molecular Genetics CAS Center for Excellence in Molecular Plant SciencesInstitute of Plant Physiology and EcologyChinese Academy of SciencesShanghai 200032China University of Chinese Academy of Sciences Beijing 100049China CAS-JIC Center of Excellence for Plant and microbial Sciences(CEPAMS) Institute of Plant Physiology and EcologyChinese Academy of SciencesShanghai 200032China

The phytohormone jasmonate plays a pivotal role in various aspects of plant life,including developmental programs and defense against pests and pathogens.A large body of knowledge on jasmonate biosynthesis,signal transduction as well as its functions in diverse plant processes has been gained in the past two *** addition,there exists extensive crosstalk between jasmonate pathway and other phytohormone pathways,such as salicylic acid(SA)and gibberellin(GA),in co-regulation of plant immune status,fine-tuning the balance of plant growth and defense,and so on,which were mostly learned from studies in the dicotyledonous model plants Arabidopsis thaliana and tomato but much less in ***,existing evidence suggests both conservation and functional divergence in terms of core components of jasmonate pathway,its biological functions and signal integration with other phytohormones,between monocot and *** this review,we summarize the current understanding on JA signal initiation,perception and regulation,and highlight the distinctive characteristics in different lineages of plants.

关键词： Jasmonate Phytohormone Signaling Crosstalk Plant defense Development Stress response

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Isolation and functional characterization of the C-terminus of rice phos-phatidylinositol 4-kinase in vitro

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Cell Research 2003年第2期13卷 131-139页

作者： XIANG FENG KONG, ZHI HONG XU, HONG WEI XUE, National Laboratory of Plant molecular Genetics, Institute of Plant Physiology and ecology, Shanghai Institutes for Biological Science (SIBS), The Chinese Academy of Sciences Partner group of Max-Planck-Institute of molecular Plant Physiology (MPI-MP) on "Plant molecular Physiology and Signal Transduction", 300 Fenglin Road, 200032 Shanghai, China National Laboratory of Plant molecular Genetics Institute of Plant Physiology and Ecology Shanghai Institutes for Biological Science (SIBS) The Chinese Academy of Sciences Partner group el Max-Planck-Institute of molecular Plant Physiology (MPI-MP) on “Plant molecular Physiology and Signal Transduction” Shanghai China

A partial rice (Oryza sativa L.) cDNA clone. OsPMK1c, was isolated through screening of a cDNA library constructed from tillering materials. OsPI4Klc encoded a peptide of 608 amino acids with a calculated molecular mass of 68.4 kDa. The OsPI4Klc peptide shared high homology and possessed the highly conserved domains present in most isolated cloned PI4-kinases, i.e. a lipid kinase unique (LKU) domain and a catalytic (CAT) domain. A region with similarity to pleckstrin homology (PH) domain was present in OsPI4K1c as well. Further comparison with genomic sequences in databases revealed that OsPI4K1c is located at the 3'-end of a putative rice PI 4-kinase coding gene OsPI4K1, and its coding region corresponded to the C-terminal half of OsPI4Kl protein. Twelve exons (49-562 bp in size) and 11 introns (77-974 bp in size) were identified in OsPI4K1c. The recombinant protein expressed in Escherichia coli phosphorylates phosphatidylinositol at the D4 position of the inositol ring. OsPI4K1 transcript levels were

关键词： Oryza sativa phosphatidylinositol 4-kinase.

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