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Wnt signaling modulates the response to DNA damage in the Drosophila wing imaginal disc by regulating the EGFR pathway. Wnt信号通过调节表皮生长因子受体通路,调节果蝇翅膀像盘对DNA损伤的反应。
IF 9.8 1区 生物学
PLoS Biology Pub Date : 2024-07-24 eCollection Date: 2024-07-01 DOI: 10.1371/journal.pbio.3002547
Ben Ewen-Campen, Norbert Perrimon
{"title":"Wnt signaling modulates the response to DNA damage in the Drosophila wing imaginal disc by regulating the EGFR pathway.","authors":"Ben Ewen-Campen, Norbert Perrimon","doi":"10.1371/journal.pbio.3002547","DOIUrl":"10.1371/journal.pbio.3002547","url":null,"abstract":"<p><p>Despite the deep conservation of the DNA damage response (DDR) pathway, cells in different contexts vary widely in their susceptibility to DNA damage and their propensity to undergo apoptosis as a result of genomic lesions. One of the cell signaling pathways implicated in modulating the DDR is the highly conserved Wnt pathway, which is known to promote resistance to DNA damage caused by ionizing radiation in a variety of human cancers. However, the mechanisms linking Wnt signal transduction to the DDR remain unclear. Here, we use a genetically encoded system in Drosophila to reliably induce consistent levels of DNA damage in vivo, and demonstrate that canonical Wnt signaling in the wing imaginal disc buffers cells against apoptosis in the face of DNA double-strand breaks. We show that Wg, the primary Wnt ligand in Drosophila, activates epidermal growth factor receptor (EGFR) signaling via the ligand-processing protease Rhomboid, which, in turn, modulates the DDR in a Chk2-, p53-, and E2F1-dependent manner. These studies provide mechanistic insight into the modulation of the DDR by the Wnt and EGFR pathways in vivo in a highly proliferative tissue. Furthermore, they reveal how the growth and patterning functions of Wnt signaling are coupled with prosurvival, antiapoptotic activities, thereby facilitating developmental robustness in the face of genomic damage.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":null,"pages":null},"PeriodicalIF":9.8,"publicationDate":"2024-07-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11341097/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141762034","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
"Best Paper" awards lack transparency, inclusivity, and support for Open Science. "最佳论文 "奖缺乏透明度、包容性和对开放科学的支持。
IF 9.8 1区 生物学
PLoS Biology Pub Date : 2024-07-23 eCollection Date: 2024-07-01 DOI: 10.1371/journal.pbio.3002715
Malgorzata Lagisz, Joanna Rutkowska, Upama Aich, Robert M Ross, Manuela S Santana, Joshua Wang, Nina Trubanová, Matthew J Page, Andrew Adrian Yu Pua, Yefeng Yang, Bawan Amin, April Robin Martinig, Adrian Barnett, Aswathi Surendran, Ju Zhang, David N Borg, Jafsia Elisee, James G Wrightson, Shinichi Nakagawa
{"title":"\"Best Paper\" awards lack transparency, inclusivity, and support for Open Science.","authors":"Malgorzata Lagisz, Joanna Rutkowska, Upama Aich, Robert M Ross, Manuela S Santana, Joshua Wang, Nina Trubanová, Matthew J Page, Andrew Adrian Yu Pua, Yefeng Yang, Bawan Amin, April Robin Martinig, Adrian Barnett, Aswathi Surendran, Ju Zhang, David N Borg, Jafsia Elisee, James G Wrightson, Shinichi Nakagawa","doi":"10.1371/journal.pbio.3002715","DOIUrl":"10.1371/journal.pbio.3002715","url":null,"abstract":"<p><p>Awards can propel academic careers. They also reflect the culture and values of the scientific community. But do awards incentivize greater transparency, inclusivity, and openness in science? Our cross-disciplinary survey of 222 awards for the \"best\" journal articles across all 27 SCImago subject areas revealed that journals and learned societies administering such awards generally publish little detail on their procedures and criteria. Award descriptions were brief, rarely including contact details or information on the nominations pool. Nominations of underrepresented groups were not explicitly encouraged, and concepts that align with Open Science were almost absent from the assessment criteria. At the same time, 10% of awards, especially the recently established ones, tended to use article-level impact metrics. USA-affiliated researchers dominated the winner's pool (48%), while researchers from the Global South were uncommon (11%). Sixty-one percent of individual winners were men. Overall, Best Paper awards miss the global calls for greater transparency and equitable access to academic recognition. We provide concrete and implementable recommendations for scientific awards to improve the scientific recognition system and incentives for better scientific practice.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":null,"pages":null},"PeriodicalIF":9.8,"publicationDate":"2024-07-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11265724/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141753186","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Selective suppression of oligodendrocyte-derived amyloid beta rescues neuronal dysfunction in Alzheimer's disease. 选择性抑制少突胶质细胞衍生的淀粉样蛋白 beta 可挽救阿尔茨海默病的神经元功能障碍。
IF 9.8 1区 生物学
PLoS Biology Pub Date : 2024-07-23 eCollection Date: 2024-07-01 DOI: 10.1371/journal.pbio.3002727
Rikesh M Rajani, Robert Ellingford, Mariam Hellmuth, Samuel S Harris, Orjona S Taso, David Graykowski, Francesca Kar Wey Lam, Charles Arber, Emre Fertan, John S H Danial, Matthew Swire, Marcus Lloyd, Tatiana A Giovannucci, Mathieu Bourdenx, David Klenerman, Robert Vassar, Selina Wray, Carlo Sala Frigerio, Marc Aurel Busche
{"title":"Selective suppression of oligodendrocyte-derived amyloid beta rescues neuronal dysfunction in Alzheimer's disease.","authors":"Rikesh M Rajani, Robert Ellingford, Mariam Hellmuth, Samuel S Harris, Orjona S Taso, David Graykowski, Francesca Kar Wey Lam, Charles Arber, Emre Fertan, John S H Danial, Matthew Swire, Marcus Lloyd, Tatiana A Giovannucci, Mathieu Bourdenx, David Klenerman, Robert Vassar, Selina Wray, Carlo Sala Frigerio, Marc Aurel Busche","doi":"10.1371/journal.pbio.3002727","DOIUrl":"10.1371/journal.pbio.3002727","url":null,"abstract":"<p><p>Reduction of amyloid beta (Aβ) has been shown to be effective in treating Alzheimer's disease (AD), but the underlying assumption that neurons are the main source of pathogenic Aβ is untested. Here, we challenge this prevailing belief by demonstrating that oligodendrocytes are an important source of Aβ in the human brain and play a key role in promoting abnormal neuronal hyperactivity in an AD knock-in mouse model. We show that selectively suppressing oligodendrocyte Aβ production improves AD brain pathology and restores neuronal function in the mouse model in vivo. Our findings suggest that targeting oligodendrocyte Aβ production could be a promising therapeutic strategy for treating AD.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":null,"pages":null},"PeriodicalIF":9.8,"publicationDate":"2024-07-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11265669/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141753187","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
miR-203 secreted in extracellular vesicles mediates the communication between neural crest and placode cells required for trigeminal ganglia formation. 细胞外囊泡分泌的 miR-203 介导了三叉神经节形成所需的神经嵴和胎盘细胞之间的交流。
IF 9.8 1区 生物学
PLoS Biology Pub Date : 2024-07-22 eCollection Date: 2024-07-01 DOI: 10.1371/journal.pbio.3002074
Yanel E Bernardi, Estefania Sanchez-Vasquez, Rocío Belén Márquez, Michael L Piacentino, Hugo Urrutia, Izadora Rossi, Karina L Alcântara Saraiva, Antonio Pereira-Neves, Marcel I Ramirez, Marianne E Bronner, Natalia de Miguel, Pablo H Strobl-Mazzulla
{"title":"miR-203 secreted in extracellular vesicles mediates the communication between neural crest and placode cells required for trigeminal ganglia formation.","authors":"Yanel E Bernardi, Estefania Sanchez-Vasquez, Rocío Belén Márquez, Michael L Piacentino, Hugo Urrutia, Izadora Rossi, Karina L Alcântara Saraiva, Antonio Pereira-Neves, Marcel I Ramirez, Marianne E Bronner, Natalia de Miguel, Pablo H Strobl-Mazzulla","doi":"10.1371/journal.pbio.3002074","DOIUrl":"10.1371/journal.pbio.3002074","url":null,"abstract":"<p><p>While interactions between neural crest and placode cells are critical for the proper formation of the trigeminal ganglion, the mechanisms underlying this process remain largely uncharacterized. Here, by using chick embryos, we show that the microRNA (miR)-203, whose epigenetic repression is required for neural crest migration, is reactivated in coalescing and condensing trigeminal ganglion cells. Overexpression of miR-203 induces ectopic coalescence of neural crest cells and increases ganglion size. By employing cell-specific electroporations for either miR-203 sponging or genomic editing using CRISPR/Cas9, we elucidated that neural crest cells serve as the source, while placode cells serve as the site of action for miR-203 in trigeminal ganglion condensation. Demonstrating intercellular communication, overexpression of miR-203 in the neural crest in vitro or in vivo represses an miR-responsive sensor in placode cells. Moreover, neural crest-secreted extracellular vesicles (EVs), visualized using pHluorin-CD63 vector, become incorporated into the cytoplasm of placode cells. Finally, RT-PCR analysis shows that small EVs isolated from condensing trigeminal ganglia are selectively loaded with miR-203. Together, our findings reveal a critical role in vivo for neural crest-placode communication mediated by sEVs and their selective microRNA cargo for proper trigeminal ganglion formation.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":null,"pages":null},"PeriodicalIF":9.8,"publicationDate":"2024-07-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11293684/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141749412","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Signaling through the nicotinic acetylcholine receptor in the liver protects against the development of metabolic dysfunction-associated steatohepatitis. 通过肝脏中的烟碱乙酰胆碱受体发出信号可防止代谢功能障碍相关性脂肪性肝炎的发生。
IF 9.8 1区 生物学
PLoS Biology Pub Date : 2024-07-19 eCollection Date: 2024-07-01 DOI: 10.1371/journal.pbio.3002728
Heejin Jun, Shanshan Liu, Alexander J Knights, Kezhou Zhu, Yingxu Ma, Jianke Gong, Ashley E Lenhart, Xiaoling Peng, Yunying Huang, Jared P Ginder, Christopher H Downie, Erika Thalia Ramos, Klas Kullander, Robert T Kennedy, X Z Shawn Xu, Jun Wu
{"title":"Signaling through the nicotinic acetylcholine receptor in the liver protects against the development of metabolic dysfunction-associated steatohepatitis.","authors":"Heejin Jun, Shanshan Liu, Alexander J Knights, Kezhou Zhu, Yingxu Ma, Jianke Gong, Ashley E Lenhart, Xiaoling Peng, Yunying Huang, Jared P Ginder, Christopher H Downie, Erika Thalia Ramos, Klas Kullander, Robert T Kennedy, X Z Shawn Xu, Jun Wu","doi":"10.1371/journal.pbio.3002728","DOIUrl":"10.1371/journal.pbio.3002728","url":null,"abstract":"<p><p>Metabolic dysfunction-associated steatohepatitis (MASH) is the progressive form of liver steatosis, the most common liver disease, and substantially increases the mortality rate. However, limited therapies are currently available to prevent MASH development. Identifying potential pharmacological treatments for the condition has been hampered by its heterogeneous and complex nature. Here, we identified a hepatic nonneuronal cholinergic signaling pathway required for metabolic adaptation to caloric overload. We found that cholinergic receptor nicotinic alpha 2 subunit (CHRNA2) is highly expressed in hepatocytes of mice and humans. Further, CHRNA2 is activated by a subpopulation of local acetylcholine-producing macrophages during MASH development. The activation of CHRNA2 coordinates defensive programs against a broad spectrum of MASH-related pathogenesis, including steatosis, inflammation, and fibrosis. Hepatocyte-specific loss of CHRNA2 signaling accelerates the disease onset in different MASH mouse models. Activation of this pathway via pharmacological inhibition of acetylcholine degradation protects against MASH development. Our study uncovers a hepatic nicotinic cholinergic receptor pathway that constitutes a cell-autonomous self-defense route against prolonged metabolic stress and holds therapeutic potential for combatting human MASH.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":null,"pages":null},"PeriodicalIF":9.8,"publicationDate":"2024-07-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11290650/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141727930","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Behavioral adjustment of C. elegans to mechanosensory loss requires intact mechanosensory neurons. 秀丽隐杆线虫对机械感觉缺失的行为调整需要完整的机械感觉神经元。
IF 9.8 1区 生物学
PLoS Biology Pub Date : 2024-07-18 eCollection Date: 2024-07-01 DOI: 10.1371/journal.pbio.3002729
Michal Staum, Ayelet-Chen Abraham, Reema Arbid, Varun Sanjay Birari, Matanel Dominitz, Ithai Rabinowitch
{"title":"Behavioral adjustment of C. elegans to mechanosensory loss requires intact mechanosensory neurons.","authors":"Michal Staum, Ayelet-Chen Abraham, Reema Arbid, Varun Sanjay Birari, Matanel Dominitz, Ithai Rabinowitch","doi":"10.1371/journal.pbio.3002729","DOIUrl":"10.1371/journal.pbio.3002729","url":null,"abstract":"<p><p>Sensory neurons specialize in detecting and signaling the presence of diverse environmental stimuli. Neuronal injury or disease may undermine such signaling, diminishing the availability of crucial information. Can animals distinguish between a stimulus not being present and the inability to sense that stimulus in the first place? To address this question, we studied Caenorhabditis elegans nematode worms that lack gentle body touch sensation due to genetic mechanoreceptor dysfunction. We previously showed that worms can compensate for the loss of touch by enhancing their sense of smell, via an FLP-20 neuropeptide pathway. Here, we find that touch-deficient worms exhibit, in addition to sensory compensation, also cautious-like behavior, as if preemptively avoiding potential undetectable hazards. Intriguingly, these behavioral adjustments are abolished when the touch neurons are removed, suggesting that touch neurons are required for signaling the unavailability of touch information, in addition to their conventional role of signaling touch stimulation. Furthermore, we found that the ASE taste neurons, which similarly to the touch neurons, express the FLP-20 neuropeptide, exhibit altered FLP-20 expression levels in a touch-dependent manner, thus cooperating with the touch circuit. These results imply a novel form of neuronal signaling that enables C. elegans to distinguish between lack of touch stimulation and loss of touch sensation, producing adaptive behavioral adjustments that could overcome the inability to detect potential threats.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":null,"pages":null},"PeriodicalIF":9.8,"publicationDate":"2024-07-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11288434/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141724851","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Single-fly genome assemblies fill major phylogenomic gaps across the Drosophilidae Tree of Life. 单蝇基因组组装填补了整个果蝇科生命树的主要系统发生学空白。
IF 9.8 1区 生物学
PLoS Biology Pub Date : 2024-07-18 eCollection Date: 2024-07-01 DOI: 10.1371/journal.pbio.3002697
Bernard Y Kim, Hannah R Gellert, Samuel H Church, Anton Suvorov, Sean S Anderson, Olga Barmina, Sofia G Beskid, Aaron A Comeault, K Nicole Crown, Sarah E Diamond, Steve Dorus, Takako Fujichika, James A Hemker, Jan Hrcek, Maaria Kankare, Toru Katoh, Karl N Magnacca, Ryan A Martin, Teruyuki Matsunaga, Matthew J Medeiros, Danny E Miller, Scott Pitnick, Michele Schiffer, Sara Simoni, Tessa E Steenwinkel, Zeeshan A Syed, Aya Takahashi, Kevin H-C Wei, Tsuya Yokoyama, Michael B Eisen, Artyom Kopp, Daniel Matute, Darren J Obbard, Patrick M O'Grady, Donald K Price, Masanori J Toda, Thomas Werner, Dmitri A Petrov
{"title":"Single-fly genome assemblies fill major phylogenomic gaps across the Drosophilidae Tree of Life.","authors":"Bernard Y Kim, Hannah R Gellert, Samuel H Church, Anton Suvorov, Sean S Anderson, Olga Barmina, Sofia G Beskid, Aaron A Comeault, K Nicole Crown, Sarah E Diamond, Steve Dorus, Takako Fujichika, James A Hemker, Jan Hrcek, Maaria Kankare, Toru Katoh, Karl N Magnacca, Ryan A Martin, Teruyuki Matsunaga, Matthew J Medeiros, Danny E Miller, Scott Pitnick, Michele Schiffer, Sara Simoni, Tessa E Steenwinkel, Zeeshan A Syed, Aya Takahashi, Kevin H-C Wei, Tsuya Yokoyama, Michael B Eisen, Artyom Kopp, Daniel Matute, Darren J Obbard, Patrick M O'Grady, Donald K Price, Masanori J Toda, Thomas Werner, Dmitri A Petrov","doi":"10.1371/journal.pbio.3002697","DOIUrl":"10.1371/journal.pbio.3002697","url":null,"abstract":"<p><p>Long-read sequencing is driving rapid progress in genome assembly across all major groups of life, including species of the family Drosophilidae, a longtime model system for genetics, genomics, and evolution. We previously developed a cost-effective hybrid Oxford Nanopore (ONT) long-read and Illumina short-read sequencing approach and used it to assemble 101 drosophilid genomes from laboratory cultures, greatly increasing the number of genome assemblies for this taxonomic group. The next major challenge is to address the laboratory culture bias in taxon sampling by sequencing genomes of species that cannot easily be reared in the lab. Here, we build upon our previous methods to perform amplification-free ONT sequencing of single wild flies obtained either directly from the field or from ethanol-preserved specimens in museum collections, greatly improving the representation of lesser studied drosophilid taxa in whole-genome data. Using Illumina Novaseq X Plus and ONT P2 sequencers with R10.4.1 chemistry, we set a new benchmark for inexpensive hybrid genome assembly at US $150 per genome while assembling genomes from as little as 35 ng of genomic DNA from a single fly. We present 183 new genome assemblies for 179 species as a resource for drosophilid systematics, phylogenetics, and comparative genomics. Of these genomes, 62 are from pooled lab strains and 121 from single adult flies. Despite the sample limitations of working with small insects, most single-fly diploid assemblies are comparable in contiguity (>1 Mb contig N50), completeness (>98% complete dipteran BUSCOs), and accuracy (>QV40 genome-wide with ONT R10.4.1) to assemblies from inbred lines. We present a well-resolved multi-locus phylogeny for 360 drosophilid and 4 outgroup species encompassing all publicly available (as of August 2023) genomes for this group. Finally, we present a Progressive Cactus whole-genome, reference-free alignment built from a subset of 298 suitably high-quality drosophilid genomes. The new assemblies and alignment, along with updated laboratory protocols and computational pipelines, are released as an open resource and as a tool for studying evolution at the scale of an entire insect family.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":null,"pages":null},"PeriodicalIF":9.8,"publicationDate":"2024-07-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11257246/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141724818","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
When size matters: A novel compact Cas12a variant for in vivo genome editing. 当大小很重要时用于体内基因组编辑的新型紧凑型 Cas12a 变体。
IF 9.8 1区 生物学
PLoS Biology Pub Date : 2024-07-17 eCollection Date: 2024-07-01 DOI: 10.1371/journal.pbio.3002637
Felix Bubeck, Dirk Grimm
{"title":"When size matters: A novel compact Cas12a variant for in vivo genome editing.","authors":"Felix Bubeck, Dirk Grimm","doi":"10.1371/journal.pbio.3002637","DOIUrl":"10.1371/journal.pbio.3002637","url":null,"abstract":"<p><p>A new study characterizes and improves a novel small Cas12a variant before adapting it for in vivo genome editing by delivery via adeno-associated virus (AAV) vectors, showcasing the potential of small CRISPR systems and their compatibility with viral vectors.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":null,"pages":null},"PeriodicalIF":9.8,"publicationDate":"2024-07-17","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11253977/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141635145","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Individual canopy tree species maps for the National Ecological Observatory Network. 国家生态观测站网络的树冠树种图。
IF 9.8 1区 生物学
PLoS Biology Pub Date : 2024-07-16 eCollection Date: 2024-07-01 DOI: 10.1371/journal.pbio.3002700
Ben G Weinstein, Sergio Marconi, Alina Zare, Stephanie A Bohlman, Aditya Singh, Sarah J Graves, Lukas Magee, Daniel J Johnson, Sydne Record, Vanessa E Rubio, Nathan G Swenson, Philip Townsend, Thomas T Veblen, Robert A Andrus, Ethan P White
{"title":"Individual canopy tree species maps for the National Ecological Observatory Network.","authors":"Ben G Weinstein, Sergio Marconi, Alina Zare, Stephanie A Bohlman, Aditya Singh, Sarah J Graves, Lukas Magee, Daniel J Johnson, Sydne Record, Vanessa E Rubio, Nathan G Swenson, Philip Townsend, Thomas T Veblen, Robert A Andrus, Ethan P White","doi":"10.1371/journal.pbio.3002700","DOIUrl":"10.1371/journal.pbio.3002700","url":null,"abstract":"<p><p>The ecology of forest ecosystems depends on the composition of trees. Capturing fine-grained information on individual trees at broad scales provides a unique perspective on forest ecosystems, forest restoration, and responses to disturbance. Individual tree data at wide extents promises to increase the scale of forest analysis, biogeographic research, and ecosystem monitoring without losing details on individual species composition and abundance. Computer vision using deep neural networks can convert raw sensor data into predictions of individual canopy tree species through labeled data collected by field researchers. Using over 40,000 individual tree stems as training data, we create landscape-level species predictions for over 100 million individual trees across 24 sites in the National Ecological Observatory Network (NEON). Using hierarchical multi-temporal models fine-tuned for each geographic area, we produce open-source data available as 1 km2 shapefiles with individual tree species prediction, as well as crown location, crown area, and height of 81 canopy tree species. Site-specific models had an average performance of 79% accuracy covering an average of 6 species per site, ranging from 3 to 15 species per site. All predictions are openly archived and have been uploaded to Google Earth Engine to benefit the ecology community and overlay with other remote sensing assets. We outline the potential utility and limitations of these data in ecology and computer vision research, as well as strategies for improving predictions using targeted data sampling.</p>","PeriodicalId":49001,"journal":{"name":"PLoS Biology","volume":null,"pages":null},"PeriodicalIF":9.8,"publicationDate":"2024-07-16","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11251727/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141628129","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Deep brain stimulation of the Tbr1-deficient mouse model of autism spectrum disorder at the basolateral amygdala alters amygdalar connectivity, whole-brain synchronization, and social behaviors. 在杏仁核基底外侧对自闭症谱系障碍 Tbr1 缺陷小鼠模型进行深部脑刺激,可改变杏仁核连接、全脑同步和社交行为。
IF 9.8 1区 生物学
PLoS Biology Pub Date : 2024-07-16 eCollection Date: 2024-07-01 DOI: 10.1371/journal.pbio.3002646
Tsan-Ting Hsu, Tzyy-Nan Huang, Chien-Yao Wang, Yi-Ping Hsueh
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