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Innovative insights into extrachromosomal circular DNAs in gynecologic tumors and reproduction

Protein & Cell 2024年第1期15卷 6-20页

作者： Ning Wu Ling Wei Zhipeng Zhu Qiang Liu Kailong Li Fengbiao Mao Jie Qiao Xiaolu Zhao State Key Laboratory of Female Fertility Promotion Center for Reproductive MedicineDepartment of Obstetrics and GynecologyCenter for Reproductive MedicinePeking University Third HospitalBeijing 100191China National Clinical Research Center for Obstetrics and Gynecology Peking University Third HospitalBeijing 100191China Key Laboratory of Assisted Reproduction(Peking University) Ministry of EducationBeijing 100191China Beijing Key Laboratory of Reproductive Endocrinology and Assisted Reproductive Technology Beijing 100191China institute of Medical Innovation and Research Peking University Third HospitalBeijing 100191China Cancer Center Peking University Third HospitalBeijing 100191China Department of Biochemistry and Biophysics Beijing Key Laboratory of Protein Posttranslational Modifications and Cell FunctionSchool of Basic Medical SciencesPeking University Health Science CenterBeijing 100191China Beijing Advanced Innovation Center for Genomics Beijing 100191China Peking-Tsinghua Center for Life Sciences Peking UniversityBeijing 100191China

Originating but free from chromosomal DNA,extrachromosomal circular DNAs(eccDNAs)are organized in circular form and have long been found in unicellular and multicellular eukaryotes.Their biogenesis and function are poorly understood as they are characterized by sequence homology with linear DNA,for which few detection methods are available.Recent advances in high-throughput sequencing technologies have revealed that eccDNAs play crucial roles in tumor formation,evolution,and drug resistance as well as aging,genomic diversity,and other biological processes,bringing it back to the research hotspot.Several mechanisms of eccDNA formation have been proposed,including the breakage-fusion-bridge(BFB)and translocation-deletion-amplification models.Gynecologic tumors and disorders of embryonic and fetal development are major threats to human reproductive health.The roles of eccDNAs in these pathological processes have been partially elucidated since the first discovery of eccDNA in pig sperm and the double minutes in ovarian cancer ascites.The present review summarized the research history,biogenesis,and currently available detection and analytical methods for eccDNAs and clarified their functions in gynecologic tumors and reproduction.We also proposed the application of eccDNAs as drug targets and liquid biopsy markers for prenatal diagnosis and the early detection,prognosis,and treatment of gynecologic tumors.This review lays theoretical foundations for future investigations into the complex regulatory networks of eccDNAs in vital physiological and pathological processes.

关键词： extrachromosomal circular DNAs gynecologic tumors reproduction liquid biopsy non-invasive prena-tal testing

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The Magnaporthe oryzae effector Avr-PikD suppresses rice immunity by inhibiting an LSD1-like transcriptional activator

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The Crop Journal 2024年第2期12卷 482-492页

作者： Jiayuan Guo Yiling Wu Jianqiang Huang Kaihui Yu Meilian Chen Yijuan Han Zhenhui Zhong Guodong Lu Yonghe Hong Zonghua Wang Xiaofeng Chen Fujian Universities Engineering Research Center of Marine Biology and Drugs Fuzhou Institute of OceanographyCollege of Geography and OceanographyMinjiang UniversityFuzhou 350108FujianChina Rice Research institute Fujian Academy of Agricultural SciencesFuzhou 350018FujianChina Ministerial and Provincial Joint Innovation Center for Safety Production of Cross-Strait Crops Minjiang UniversityFuzhou 350108FujianChina State Key Laboratory of Ecological Pest Control for Fujian and Taiwan Crops College of Plant ProtectionFujian Agriculture and Forestry UniversityFuzhou 350002FujianChina

Avirulence effectors(Avrs),encoded by plant pathogens,can be recognized by plants harboring the corresponding resistance proteins,thereby initiating effector-triggered immunity(ETI).In susceptible plants,however,Avrs can function as effectors,facilitating infection via effector-triggered susceptibility(ETS).Mechanisms of Avr-mediated ETS remain largely unexplored.Here we report that the Magnaporthe oryzae effector Avr-PikD enters rice cells via the canonical cytoplasmic secretion pathway and suppresses rice basal defense.Avr-PikD interacts with an LSD1-like transcriptional activator AKIP30 of rice,and AKIP30 is also a positive regulator of rice immunity,whereas Avr-PikD impedes its nuclear localization and suppresses its transcriptional activity.In summary,M.oryzae delivers Avr-PikD into rice cells to facilitate ETS by inhibiting AKIP30-mediated transcriptional regulation of immune response against M.oryzae.

关键词： Magnaporthe oryzae Avirulence effector Avr-PikD Effector-triggered susceptibility Rice immunity Transcriptional activator

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Study of the ability of SWOT to detect sea surface height changes caused by internal solitary waves

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Acta Oceanologica Sinica 2024年第5期43卷 54-64页

作者： Hao Zhang Chenqing Fan Lina Sun Junmin Meng First institute of oceanography Ministry of Natural ResourcesQingdao 266061China Technology Innovation Center for Ocean Telemetry Ministry of Natural ResourcesQingdao 266061China College of oceanography and Space Informatics China University of Petroleum(Huadong)Qingdao 266580China

Surface Water and Ocean Topography(SWOT)is a next-generation radar altimeter that offers high resolution,wide swath,imaging capabilities.It has provided free public data worldwide since December 2023.This paper aims to preliminarily analyze the detection capabilities of the Ka-band radar interferometer(KaRIn)and Nadir altimeter(NALT),which are carried out by SWOT for internal solitary waves(ISWs),and to gather other remote sensing images to validate SWOT observations.KaRIn effectively detects ISW surface features and generates surface height variation maps reflecting the modulations induced by ISWs.However,its swath width does not completely cover the entire wave packet,and the resolution of L2/L3 level products(about 2 km)cannot be used to identify ISWs with smaller wavelengths.Additionally,significant wave height(SWH)images exhibit blocky structures that are not suitable for ISW studies;sea surface height anomaly(SSHA)images display systematic leftright banding.We optimize this imbalance using detrending methods;however,more precise treatment should commence with L1-level data.Quantitative analysis based on L3-level SSHA data indicates that the average SSHA variation induced by ISWs ranges from 10 cm to 20 cm.NALTs disturbed by ISWs record unusually elevated SWH and SSHA values,rendering the data unsuitable for analysis and necessitating targeted corrections in future retracking algorithms.For the normalized radar cross section,Ku-band and four-parameter maximum likelihood estimation retracking demonstrated greater sensitivity to minor changes in the sea surface,making them more suitable for ISW detection.In conclusion,SWOT demonstrates outstanding capabilities in ISW detection,significantly advancing research on the modulation of the sea surface by ISWs and remote sensing imaging mechanisms.

关键词： internal solitary waves Surface Water and Ocean Topography(SWOT) Ka-band radar interferometer(KaRIn) Nadir altimeter(NALT) sea surface height anomaly(SSHA) normalized radar cross section(NRCS)

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Experimental study on the variation of optical remote sensing imaging characteristics of internal solitary waves with wind speed

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Journal of Oceanology and Limnology 2024年第2期42卷 408-420页

作者： Zhe CHANG Lina SUN Tengfei LIU Meng ZHANG Keda LIANG Junmin MENG Jing WANG School of Physics and Optoelectronic Engineering Ocean University of ChinaQingdao 266100China First institute of oceanography Ministry of Natural ResourcesQingdao 266061China Technology Innovation Center for Ocean Telemetry Ministry of Natural ResourcesQingdao 266061China

Optical remote sensing has been widely used to study internal solitary waves(ISWs).Wind speed has an important effect on ISW imaging of optical remote sensing.The light and dark bands of ISWs cannot be observed by optical remote sensing when the wind is too strong.The relationship between the characteristics of ISWs bands in optical remote sensing images and the wind speed is still unclear.The influence of wind speeds on the characteristics of the ISWs bands is investigated based on the physical simulation experiments with the wind speeds of 1.6,3.1,3.5,3.8,and 3.9 m/s.The experimental results show that when the wind speed is 3.9 m/s,the ISWs bands cannot be observed in optical remote sensing images with the stratification of h_(1)∶h_(2)=7∶58,ρ_(1)∶ρ_(2)=1∶1.04.When the wind speeds are 3.1,3.5,and 3.8 m/s,which is lower than 3.9 m/s,the ISWs bands can be obtained in the simulated optical remote sensing image.The location of the band’s dark and light extremum and the band’s peak-to-peak spacing are almost not affected by wind speed.More-significant wind speeds can cause a greater gray difference of the light-dark bands.This provided a scientific basis for further understanding of ISW optical remote sensing imaging.

关键词： internal solitary wave(ISW) optical remote sensing wind speed characteristics of ISWs bands

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Artificial enhancement of sturgeon stock in freshwater reservoirs:A case study on sterlet Acipenser ruthenus of the Kama reservoir

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Aquaculture and Fisheries 2024年第2期9卷 287-294页

作者： Pavel B.Mikheev Semyon N.Kazarinov Alla G.Melnikova Stanislav V.Ponosov Nikolai G.Petrenko Andrei I.Nikiforov Alexey Yu Puzik Olga N.Elchenkova Perm State National Research University Perm614990Russia Khabarovsk Branch of the Federal State Budget Scientific Institution“Russian Federal Research institute of Fisheries and oceanography”“KhabarovskNIRO” Khabarovsk680038Russia Perm Branch of the Federal State Budget Scientific Institution“Russian Federal Research institute of Fisheries and oceanography”“PermNIRO” Perm614991Russia Federal State Budget Scientific Institution“Russian Federal Research institute of Fisheries and oceanography”“VNIRO” Moscow117454Russia Moscow State institute of International Relations(University)of the Ministry for Foreign Affairs of Russia“MGIMO” Moscow117454Russia Department of State Control Supervision and Protection of Aquatic Biological Resources for Perm KraiMiddle-Volga Regional Office of the Federal Fishery AgencyPerm614990Russia

The paper presents the results of the sterlet sturgeon Acipenser ruthenus reintroduction into the Kama Reservoir(Perm Krai,Russia)by sterlet fry from hatcheries into the reservoir since 2001.The effectiveness of hatchery releases was evaluated by monitoring gillnet sampling 2014-2020.The results showed that the species was reported throughout entire Kama Reservoir,which contrasts with 1988-1994 data,when the species was registered only at the upper part of the reservoir near the Kama River mouth.The highest number and biomass values of catch per unit effort(CPUE)of the sterlet were found in submerged river channels-the deepest habitats with flow conditions which are close to the ecological requirements of the species.The distribution of the sterlet within the channel biotopes of the reservoir is defined by reduced variability.The biggest individuals and the widest size range of the sterlet were typical for the upper area of the reservoir and Chusovskoy Bay,which have the greatest flow.The smallest sizes were typical for fish from catches near the dam of the reservoir,which is consistent with the published data on the distribution of sterlet in reservoir conditions.The presented results may indicate the artificial formation of the sterlet stock in the Kama Reservoir maintained by hatchery releases.The revealed distribution of the sterlet in the reservoir determines the direction of further research on natural reproduction and thus formation of an artificially formed population.Also,future studies are required to assess the possibility of hybridization of the sterlet of artificial origin with natural populations of the species,since the low genetic diversity of the sterlet released into the Kama Reservoir which can lead to irreversible loss of genetic individuality of the natural stocks of the species in the catchment of upper course of the Kama River.

关键词： Sterlet Acipenser ruthenus Kama reservoir Hatchery releases CPUE Artificial stock formation

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Nonlinear photonic quasi-periodic spiral

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Chinese Optics Letters 2024年第3期22卷 112-117页

作者：曾静王森赵如薇刘永兴徐铁峰盛艳徐天翔 Laboratory of Infrared Materials and Devices Research Institute of Advanced TechnologiesNingbo UniversityNingbo 315211China Zhejiang Key Laboratory of Photoelectric Materials and Devices Ningbo UniversityNingbo 315211China Ningbo institute of oceanography Ningbo 315832China Department of Quantum Science and Technology Research School of PhysicsAustralian National UniversityCanberraACT 2601Australia

The design of nonlinear photonic Vogel's spiral based on quasi-crystal theory was demonstrated.Two main parameters of Vogel's spiral were arranged to obtain multi-reciprocal circles.Typical structure was fabricated by the near-infrared femtosecond laser poling technique,forming a nonlinear photonic structure,and multiple ring-like nonlinear Raman±Nath second-harmonic generation processes were realized and analyzed in detail.The structure for the cascaded thirdharmonic generation process was predicted.The results could help deepen the understanding of Vogel's spiral and quasi-crystal and pave the way for the combination of quasi-crystal theory with more aperiodic structures.

关键词： nonlinear photonic quasi-crystal second-harmonic generation Vogel's spiral nonlinear Raman-Nath diffraction femtosecond laser poling

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The underlying mechanism of variety–water–nitrogen–stubble damage interactions on yield formation in ratoon rice with low stubble height under mechanized harvesting

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Journal of Integrative Agriculture 2024年第3期23卷 806-823页

作者： Jingnan Zou Ziqin Pang Zhou Li Chunlin Guo Hongmei Lin Zheng Li Hongfei Chen Jinwen Huang Ting Chen Hailong Xu Bin Qin Puleng Letuma Weiwei Lin Wenxiong Lin College of Life Sciences Fujian Agriculture and Forestry University(FAFU)/Fujian Key Laboratory for Agroecological Processes and Safety MonitoringFuzhou 350002China College of Agriculture FAFU/Fujian Key Laboratory for Crop Physiology and Molecular EcologyFuzhou 350002China institute of oceanography College of Geography and OceanographyMinjiang UniversityFuzhou 350108China Crop Science Department The National University of LesothoRoma 00100Lesotho The Agricultural Extension Station of Pucheng County Nanping 353400China

Agronomic measures are the key to promote the sustainable development of ratoon rice by reducing the damage from mechanical crushing to the residual stubble of the main crop, thereby mitigating the impact on axillary bud sprouting and yield formation in ratoon rice. This study used widely recommended conventional rice Jiafuzhan and hybrid rice Yongyou 2640 as the test materials to conduct a four-factor block design field experiment in a greenhouse of the experimental farm of Fujian Agricultural and Forestry University, China from 2018 to 2019.The treatments included fertilization and no fertilization, alternate wetting and drying irrigation and continuous water flooding irrigation, and plots with and without artificial crushing damage on the rice stubble. At the same time, a 13C stable isotope in-situ detection technology was used to fertilize the pot experiment. The results showed significant interactions among varieties, water management, nitrogen application and stubble status.Relative to the long-term water flooding treatment, the treatment with sequential application of nitrogen fertilizer coupled with moderate field drought for root-vigor and tiller promotion before and after harvesting of the main crop, significantly improved the effective tillers from low position nodes. This in turn increased the effective panicles per plant and grains per panicle by reducing the influence of artificial crushing damage on rice stubble and achieving a high yield of the regenerated rice. Furthermore, the partitioning of 13C assimilates to the residual stubble and its axillary buds were significantly improved at the mature stage of the main crop, while the translocation rate to roots and rhizosphere soil was reduced at the later growth stage of ratooning season rice. This was triggered by the metabolism of hormones and polyamines at the stem base regulated by the interaction of water and fertilizer at this time. We therefore suggest that to achieve a high yield of ratoon rice with low stubble height under mechanized harvest

关键词： mechanized harvesting ratoon rice rice stubble yield attributes

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The largest CPIES array in the marginal sea:abundant dynamics in the northeast South China Sea

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Acta Oceanologica Sinica 2024年第1期43卷 135-137页

作者： Hua Zheng Xiao-Hua Zhu Min Wang Ruixiang Zhao Chuanzheng Zhang Feng Nan Fei Yu institute of Polar and Ocean Technology Second Institute of OceanographyMinistry of Natural ResourcesHangzhou 310012China State Key Laboratory of Satellite Ocean Environment Dynamics Second Institute of OceanographyMinistry of Natural ResourcesHangzhou 310012China School of oceanography Shanghai Jiao Tong UniversityShanghai 200030China Southern Marine Science and Engineering Guangdong Laboratory(Zhuhai) Zhuhai 519082China National Marine Environmental Monitoring Center Dalian 116023China Key Laboratory of Ocean Circulation and Waves Institute of OceanologyChinese Academy of SciencesQingdao 266071China University of Chinese Academy of Sciences Beijing 100049China Center for Ocean Mega-Science Chinese Academy of SciencesQingdao 266071China Laboratory for Ocean and Climate Dynamics Qingdao National Laboratory for Marine Science and TechnologyQingdao 266237China

The South China Sea(SCS)is a marginal sea connecting the Pacific and Indian oceans and has gained much attention in recent decades.The dynamics in the northeast SCS are considerably influenced by topography,monsoons,t... 详细信息

关键词： northeast marginal abundant

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A VGGNet-based correction for satellite altimetry-derived gravity anomalies to improve the accuracy of bathymetry to depths of 6500 m

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Acta Oceanologica Sinica 2024年第1期43卷 112-122页

作者： Xiaolun Chen Xiaowen Luo Ziyin Wu Xiaoming Qin Jihong Shang Huajun Xu Bin Li Mingwei Wang Hongyang Wan Key Laboratory of Submarine Geosciences Second Institute of OceanographyMinistry of Natural ResourcesHangzhou 310012China Ocean College Zhejiang UniversityZhoushan 316021China Key Laboratory of Ocean Space Resources Management Technology Marine Academy of ZhejiangHangzhou 310012China School of oceanography Shanghai Jiao Tong UniversityShanghai 200240China School of Civil Engineering and Architectures Zhejiang University of Science and TechnologyHangzhou 310023China National Center for Archaeology Beijing 100013China

Understanding the topographic patterns of the seafloor is a very important part of understanding our planet.Although the science involved in bathymetric surveying has advanced much over the decades,less than 20%of the seafloor has been precisely modeled to date,and there is an urgent need to improve the accuracy and reduce the uncertainty of underwater survey data.In this study,we introduce a pretrained visual geometry group network(VGGNet)method based on deep learning.To apply this method,we input gravity anomaly data derived from ship measurements and satellite altimetry into the model and correct the latter,which has a larger spatial coverage,based on the former,which is considered the true value and is more accurate.After obtaining the corrected high-precision gravity model,it is inverted to the corresponding bathymetric model by applying the gravity-depth correlation.We choose four data pairs collected from different environments,i.e.,the Southern Ocean,Pacific Ocean,Atlantic Ocean and Caribbean Sea,to evaluate the topographic correction results of the model.The experiments show that the coefficient of determination(R~2)reaches 0.834 among the results of the four experimental groups,signifying a high correlation.The standard deviation and normalized root mean square error are also evaluated,and the accuracy of their performance improved by up to 24.2%compared with similar research done in recent years.The evaluation of the R^(2) values at different water depths shows that our model can achieve performance results above 0.90 at certain water depths and can also significantly improve results from mid-water depths when compared to previous research.Finally,the bathymetry corrected by our model is able to show an accuracy improvement level of more than 21%within 1%of the total water depths,which is sufficient to prove that the VGGNet-based method has the ability to perform a gravity-bathymetry correction and achieve outstanding results.

关键词： gravity anomaly bathymetry inversion VGGNet multibeam sonar satellite altimetry

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Spatial-temporal shifting patterns and in situ conservation of spotted seal(Phoca largha)populations in the Yellow Sea ecoregion

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Integrative Zoology 2024年第2期19卷 307-318页

作者： Hongfei ZHUANG Fei SHAO Chao ZHANG Wancai XIA Shouqiang WANG Fangyuan QU Zongling WANG Zhichuang LU Linlin ZHAO Zhaohui ZHANG First institute of oceanography Ministry of Natural ResourcesQingdaoChina Department of Natural Resources of Shandong Province Shandong Forestry Protection and Development Service CenterJinanChina National Park(Protected Areas)Development Center National Forestry and Grassland AdministrationBeijingChina College of Life Science China West Normal UniversityNanchongChina Liaoning Ocean and Fisheries Science Research institute DalianChina

Understanding the habitat shifting pattern is a prerequisite for implementing in situ conservation of migratory species.Spotted seals(Phoca largha)inhabiting the Yellow Sea ecoregion(YSE)comprise a small population with independent genes and represent a charismatic flagship species in this region.However,this population has declined by 80%since the 1940s,and increased support from the countries around the YSE is urgently needed to address the potential local extinction risk.A time-series niche model and life-history weighted systematic conservation planning were designed on the basis of a satellite beacon tracking survey(2010–2020)of the YSE population.The results showed clustering and spreading shifting patterns during the breeding and migratory seasons,respectively.The closed-loop migration route formed in the YSE indicated that this population might be geographically isolated from populations in other breeding areas around the world.The conservation priority area(CPA),with an area of 19632 km^(2)(3.58%of the total YSE area),was the most effective response to the potential in situ risk.However,nearly 80%of the CPA was exposed outside the existing marine protected areas(MPAs).Future establishment of MPAs in China should strategically consider the conservation gap identified herein,and it is recommended for Korea’s closed fishing season to be spatially set in the western Korean Peninsula from May to August.This study also exemplified that the lack of temporal information would lead to the dislocation of niche modeling for migratory species represented by spotted seals.Attention should be paid to protecting small and migratory populations in marine biodiversity conservation planning.

关键词： conservation priority area marine protected area migration seasonal management spotted seal

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