FLASH: fast length adjustment of short reads to improve genome assemblies

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1. Endogenous Retrotransposition Activates Oncogenic Pathways in Hepatocellular Carcinoma
   Ruchi Shukla, Kyle R. Upton, Martín Muñoz-López, Daniel J. Gerhardt, Malcolm E Fisher, Thu Nguyen, Paul Martin Brennan, John Kenneth Baillie, Agnese Collino, Serena Ghisletti et al. · 2013 · Cell
2. Maternal Polystyrene Microplastic Exposure during Gestation and Lactation Altered Metabolic Homeostasis in the Dams and Their F1 and F2 Offspring
   Ting Luo, Caiyun Wang, Zihong Pan, Cuiyuan Jin, Zhengwei Fu, Yuanxiang Jin · 2019 · Environmental Science & Technology
3. A reservoir of ‘historical’ antibiotic resistance genes in remote pristine Antarctic soils
   Marc W. Van Goethem, Rian Pierneef, Oliver K. I. Bezuidt, Yves Van de Peer, Don Arthur Cowan, Thulani Peter Makhalanyane · 2018 · Microbiome
4. Host genetics and the rumen microbiome jointly associate with methane emissions in dairy cows
   Gareth F. Difford, Damian Rafal Plichta, Peter Løvendahl, Jan Lassen, Samantha Joan Noel, Ole Højberg, André‐Denis G. Wright, Zhigang Zhu, Lise Kristensen, Henrik Bjørn Nielsen et al. · 2018 · PLoS Genetics
5. Genome diversity of tuber-bearing Solanum uncovers complex evolutionary history and targets of domestication in the cultivated potato
   Michael A. Hardigan, F. Parker E. Laimbeer, Linsey A. Newton, Emily Crisovan, John P. Hamilton, Brieanne Vaillancourt, Krystle E. Wiegert-Rininger, Joshua C. Wood, David S. Douches, Eva M. Farré et al. · 2017 · Proceedings of the National Academy of Sciences
6. Microbiota alteration is associated with the development of stress-induced despair behavior
   Marin, Ioana A., Goertz, Jennifer E., Ren, Tiantian, Rich, Stephen S., Onengut-Gumuscu, Suna, Farber, Emily, Wu, Martin, Overall, Christopher C., Kipnis, Jonathan, Gaultier, Alban · 2017 · Scientific Reports
7. Climate warming leads to divergent succession of grassland microbial communities
   Xue Yi Guo, Jiajie Feng, Zhou Jason Shi, Xishu Zhou, Mengting Yuan, Xuanyu Tao, Lauren E. Hale, Tong Yuan, Jianjun Wang, Yujia Qin et al. · 2018 · Nature Climate Change
8. The effects of chemical and organic fertilizer usage on rhizosphere soil in tea orchards
   Weiwei Lin, Manhong Melissa Lin, Hongyan Zhou, Hongmiao Wu, Zhaowei Li, Wenxiong Lin · 2019 · PLoS ONE
9. Antibiotic-induced microbiota perturbation causes gut endocannabinoidome changes, hippocampal neuroglial reorganization and depression in mice
   Guida, F., Turco, F., Iannotta, M., De Gregorio, D., Palumbo, I., Sarnelli, G., Furiano, A., Napolitano, F., Boccella, S., Luongo, L. et al. · 2018 · Brain Behavior and Immunity
10. Oral Microbiota Community Dynamics Associated With Oral Squamous Cell Carcinoma Staging
    Chia‐Yu Yang, Yuan‐Ming Yeh, Haiying Yu, Chia-Yin Chin, Chia‐Wei Hsu, Hsuan Liu, Po-Jung Huang, Songnian Hu, Chun‐Ta Liao, Kai‐Ping Chang et al. · 2018 · Frontiers in Microbiology
11. Analysing Microbial Community Composition through Amplicon Sequencing: From Sampling to Hypothesis Testing
    Luisa Warchavchik Hugerth, Anders F. Andersson · 2017 · Frontiers in Microbiology
12. High-resolution bacterial 16S rRNA gene profile meta-analysis and biofilm status reveal common colorectal cancer consortia
    Drewes, Julia L., White, James R., Dejea, Christine M., Fathi, Payam, Iyadorai, Thevambiga, Vadivelu, Jamuna, Roslani, April C., Wick, Elizabeth C., Mongodin, Emmanuel F., Loke, Mun Fai et al. · 2017 · npj Biofilms and Microbiomes
13. GapFiller: a de novo assembly approach to fill the gap within paired reads
    Francesca Nadalin, Francesco Vezzi, Alberto Policriti · 2012 · BMC Bioinformatics
14. Noninvasive monitoring of infection and rejection after lung transplantation
    Iwijn De Vlaminck, Lance Martin, Michael Kertesz, K. Patel, Mark Kowarsky, Calvin Strehl, Garrett Cohen, Helen I. Luikart, Norma F Neff, Jennifer Okamoto et al. · 2015 · Proceedings of the National Academy of Sciences
15. Drivers and dynamics of a massive adaptive radiation in cichlid fishes
    F. Ronco, M. Matschiner, A. Böhne, A. Boila, Heinz H. Büscher, A. El Taher, A. Indermaur, M. Malinsky, Virginie Ricci, A. Kahmen et al. · 2020 · Nature
16. Tick-Bacteria Mutualism Depends on B Vitamin Synthesis Pathways
    Olivier Duron, Olivier Morel, Valérie Noël, Marie Buysse, Florian Binetruy, Renaud Lancelot, Étienne Loire, Claudine Ménard, Olivier Bouchez, Fabrice Vavre et al. · 2018 · Current Biology
17. Ubiquitous L1 Mosaicism in Hippocampal Neurons
    Upton, Kyle R., Gerhardt, Daniel J., Jesuadian, J. Samuel, Richardson, Sandra R., Sánchez-Luque, Francisco J., Bodea, Gabriela O., Ewing, Adam D., Salvador-Palomeque, Carmen, van der Knaap, Marjo S., Brennan, Paul M. et al. · 2015 · Cell
18. Distinct roles for soil fungal and bacterial communities associated with the suppression of vanilla Fusarium wilt disease
    Xiong, Wu, Li, Rong, Ren, Yi, Liu, Chen, Zhao, Qingyun, Wu, Huasong, Jousset, Alexandre, Shen, Qirong · 2017 · Soil Biology and Biochemistry
19. Alteration of the cutaneous microbiome in psoriasis and potential role in Th17 polarization
    Hsin-Wen Chang, Di Yan, Rasnik Singh, Jared Liu, Xueyan Lu, Derya Uçmak, Kristina M. Lee, Ladan Afifi, Douglas W. Fadrosh, John M. Leech et al. · 2018 · Microbiome
20. Gnotobiotic mouse model of phage–bacterial host dynamics in the human gut
    Reyes, Alejandro, Wu, Meng, McNulty, Nathan P., Rohwer, Forest L., Gordon, Jeffrey I. · 2013 · Proceedings of the National Academy of Sciences
21. Biochar decreased microbial metabolic quotient and shifted community composition four years after a single incorporation in a slightly acid rice paddy from southwest China
    Jufeng Zheng, Junhui Chen, Genxing Pan, Xiaoyu Liu, Xuhui Zhang, Lianqing Li, Rongjun Bian, Kun Cheng, Zheng Jinwei · 2016 · The Science of The Total Environment
22. The antimicrobial potential of Streptomyces from insect microbiomes
    Marc G. Chevrette, Caitlin M. Carlson, Humberto E. Ortega, Chris S. Thomas, Gene E. Ananiev, Kenneth J. Barns, Adam J. Book, Julian Cagnazzo, Camila Carlos, Will Flanigan et al. · 2019 · Nature Communications
23. Patterns in soil microbial diversity across Europe
    Maëva Labouyrie, Cristiano Ballabio, Ferran Romero, Panos Panagos, Arwyn Jones, Marc W. Schmid, Vladimir S. Mikryukov, Olesya V. Dulya, Leho Tedersoo, Mohammad Bahram et al. · 2023 · Nature Communications
24. Adaptive introgression underlies polymorphic seasonal camouflage in snowshoe hares
    Matthew R. Jones, L. Scott Mills, Paulo C. Alves, Colin M. Callahan, Joel M. Alves, Diana J. R. Lafferty, Francis M. Jiggins, Jeffrey D. Jensen, José Melo‐Ferreira, Jeffrey Martin Good · 2018 · Science
25. Depletion of Blautia Species in the Microbiota of Obese Children Relates to Intestinal Inflammation and Metabolic Phenotype Worsening
    Alfonso Benítez‐Páez, Eva M. Gómez del Pulgar, Inmaculada López‐Almela, Ángela Moya-Pérez, Pilar Codoñer‐Franch, Yolanda Sanz · 2020 · mSystems
26. Metatranscriptomic Evidence for Direct Interspecies Electron Transfer between Geobacter and Methanothrix Species in Methanogenic Rice Paddy Soils
    Dawn E. Holmes, Pravin Malla Shrestha, David J. F. Walker, Yan Dang, Kelly P. Nevin, Trevor L. Woodard, Derek R. Lovley · 2017 · Applied and Environmental Microbiology
27. Cas9 gRNA engineering for genome editing, activation and repression
    Samira Kiani, Alejandro Chavez, Marcelle L. Tuttle, Richard Nelson Hall, Raj Chari, Dmitry Ter‐Ovanesyan, Jason Qian, Benjamin W. Pruitt, Jacob Beal, Suhani Vora et al. · 2015 · Nature Methods
28. Fungal Dysbiosis in Mucosa-associated Microbiota of Crohn’s Disease Patients
    Giuseppina Liguori, Bruno Lamas, Mathias L. Richard, Giovanni Brandi, Grégory Da Costa, Thomas Walter Hoffmann, Massimo Pierluigi Di Simone, Carlo Calabrese, Gilberto Poggioli, Philippe Langella et al. · 2015 · Journal of Crohn s and Colitis
29. Probiotics and fructo-oligosaccharide intervention modulate the microbiota-gut brain axis to improve autism spectrum reducing also the hyper-serotonergic state and the dopamine metabolism disorder
    Wang, Ying, Li, Ning, Yang, Jun-Jie, Zhao, Dong-Mei, Chen, Bin, Zhang, Guo-Qing, Chen, Shuo, Cao, Rui-Fang, Yu, Han, Zhao, Chang-Ying et al. · 2020 · Pharmacological Research
30. Bio-fertilizer application induces soil suppressiveness against Fusarium wilt disease by reshaping the soil microbiome
    Wu Xiong, Sai Guo, Alexandre Jousset, Qingyun Zhao, Huasong Wu, Rong Li, George A. Kowalchuk, Qirong Shen · 2017 · Soil Biology and Biochemistry
31. Engineering an allosteric transcription factor to respond to new ligands
    Taylor, Noah D, Garruss, Alexander S, Moretti, Rocco, Chan, Sum, Arbing, Mark A, Cascio, Duilio, Rogers, Jameson K, Isaacs, Farren J, Kosuri, Sriram, Baker, David et al. · 2016 · Nature Methods
32. Natural soil microbes alter flowering phenology and the intensity of selection on flowering time in a wild Arabidopsis relative
    Maggie R. Wagner, Derek S. Lundberg, Devin Coleman‐Derr, Susannah Green Tringe, Jeffery L. Dangl, Thomas Mitchell‐Olds · 2014 · Ecology Letters
33. Parasites dominate hyperdiverse soil protist communities in Neotropical rainforests
    Frédéric Mahé, Colomban de Vargas, David Bass, Lucas Czech, Alexandros Stamatakis, Enrique Lara, David Singer, Jordan R. Mayor, John Bunge, Sarah Sernaker et al. · 2017 · Nature Ecology & Evolution
34. Soil fungal diversity in natural grasslands of the Tibetan Plateau: associations with plant diversity and productivity
    Teng Yang, Jonathan M. Adams, Yu Shi, Jin‐sheng He, Xin Jing, Litong Chen, Leho Tedersoo, Haiyan Chu · 2017 · New Phytologist
35. Farm-like indoor microbiota in non-farm homes protects children from asthma development
    Pirkka V. Kirjavainen, Anne M. Karvonen, Rachel I. Adams, Martin Täubel, Marjut Roponen, Pauli Tuoresmäki, Georg J. Loss, Balamuralikrishna Jayaprakash, Martin Depner, Markus Johannes Ege et al. · 2019 · Nature Medicine
36. Impacts of addition of natural zeolite or a nitrification inhibitor on antibiotic resistance genes during sludge composting
    Junya Zhang, Meixue Chen, Qianwen Sui, Juan Tong, Chao Jiang, Xueting Lu, Yuxiu Zhang, Yuansong Wei · 2016 · Water Research
37. Selective depletion of uropathogenic E. coli from the gut by a FimH antagonist
    Caitlin N. Spaulding, Roger D. Klein, Ségolène Ruer, Andrew L. Kau, Henry L. Schreiber, Zachary Cusumano, Karen Dodson, Jerome S. Pinkner, Daved H. Fremont, James W. Janetka et al. · 2017 · Nature
38. Terrestrial origin of bacterial communities in complex boreal freshwater networks
    Clara Ruiz‐González, Juan Pablo Niño‐García, Paul A. del Giorgio · 2015 · Ecology Letters
39. Major role of nitrite-oxidizing bacteria in dark ocean carbon fixation
    Maria Pachiadaki, Eva Sintes, Kristin Bergauer, Julia M. Brown, Nicholas R. Record, Brandon K. Swan, Mary Elizabeth Mathyer, Steven Hallam, Purificación López‐García, Yoshihiro Takaki et al. · 2017 · Science
40. Differentiation strategies of soil rare and abundant microbial taxa in response to changing climatic regimes
    Yuting Liang, Xian Xiao, Erin Nuccio, Mengting Yuan, Na Zhang, Kai Xue, Frederick M. Cohan, Jizhong Z. Zhou, Bo Sun · 2020 · Environmental Microbiology
41. Observed antibody space: a diverse database of cleaned, annotated, and translated unpaired and paired antibody sequences
    Olsen, Tobias H., Boyles, Fergus, Deane, Charlotte M. · 2022 · Protein Science
42. Effects of Vendor and Genetic Background on the Composition of the Fecal Microbiota of Inbred Mice
    Aaron C. Ericsson, J. Wade Davis, William G. Spollen, Nathan J. Bivens, Scott A. Givan, Catherine E. Hagan, Mark McIntosh, Craig L. Franklin · 2015 · PLoS ONE
43. Heart Failure is Associated with Depletion of Core Intestinal Microbiota
    Mark Luedde, Thorben Winkler, Femke‐Anouska Heinsen, Malte Christoph Rühlemann, Martina E. Spehlmann, Amer Bajrovic, Wolfgang Lieb, André Franke, Stephan Johannes Ott, Norbert Frey · 2017 · ESC Heart Failure
44. Long-Term Nickel Contamination Increases the Occurrence of Antibiotic Resistance Genes in Agricultural Soils
    Hang‐Wei Hu, Juntao Wang, Jing Li, Xiuzhen Shi, Yibing Ma, Deli Chen, Ji-Zheng He · 2016 · Environmental Science & Technology
45. The Genome of Artemisia annua Provides Insight into the Evolution of Asteraceae Family and Artemisinin Biosynthesis
    Qian Shen, Lida Zhang, Zhihua Liao, Shengyue Wang, Tingxiang Yan, Pu Shi, Meng Liu, Xueqing Fu, Qifang Pan, Yuliang Wang et al. · 2018 · Molecular Plant
46. Strong impact of anthropogenic contamination on the co‐occurrence patterns of a riverine microbial community
    Anyi Hu, Feng Ju, Liyuan Hou, Jiangwei Li, Xiaoyong Yang, Hongjie Wang, Sikandar Imamsab Mulla, Qian Sun, Helmut Bürgmann, Chang‐Ping Yu · 2017 · Environmental Microbiology
47. Exploring the Gastrointestinal “Nemabiome”: Deep Amplicon Sequencing to Quantify the Species Composition of Parasitic Nematode Communities
    Russell W. Avramenko, Elizabeth Redman, Roy Lewis, Thomas A. Yazwinski, James D. Wasmuth, John S. Gilleard · 2015 · PLoS ONE
48. Habitat-specific patterns and drivers of bacterial β-diversity in China’s drylands
    Xiaobo Wang, Xiao‐Tao Lü, Jing Tao Yao, Zhengwen Wang, Ye Deng, Weixin Cheng, Jizhong Z. Zhou, Xingguo Han · 2017 · The ISME Journal
49. Immune-suppression by OsHV-1 viral infection causes fatal bacteraemia in Pacific oysters
    Julien de Lorgeril, Aude Lucasson, Bruno Petton, Ève Toulza, Caroline Montagnani, Camille Clérissi, Jérémie Vidal‐Dupiol, Cristian Chaparro, Richard Galinier, Jean-Michel Escoubas et al. · 2018 · Nature Communications
50. Possible association of Firmicutes in the gut microbiota of patients with major depressive disorder
    Yichen Huang, Xing Shi, Zhiyong Li, Yang Shen, Xinxin Shi, Liying Wang, Gaofei Li, Ye Yuan, Jixiang Wang, Yongchao Zhang et al. · 2018 · Neuropsychiatric Disease and Treatment
51. LotuS: an efficient and user-friendly OTU processing pipeline
    Falk Hildebrand, Raul Tadeo, Anita Yvonne Voigt, Peer Bork B, Jeroen Raes · 2014 · Microbiome
52. Quantitative Microbial Ecology through Stable Isotope Probing
    Bruce A. Hungate, Rebecca L. Mau, Egbert Schwartz, J. Gregory Caporaso, Paul Dijkstra, Natasja C. van Gestel, Benjamin J. Koch, Cindy M. Liu, Theresa A. McHugh, Jane Claire Marks et al. · 2015 · Applied and Environmental Microbiology
53. The Gut Microbiota of Healthy Chilean Subjects Reveals a High Abundance of the Phylum Verrucomicrobia
    Sayaka Fujio, Yessenia Vasquez, Pamela Morales, Fabien Magne, Patricia Vera-Wolf, Juan Antonio Ugalde, Paola Navarrete, Martín Gotteland · 2017 · Frontiers in Microbiology
54. Gut-dependent microbial translocation induces inflammation and cardiovascular events after ST-elevation myocardial infarction
    Xin Zhou, Jing Li, Junli Guo, Bin Geng, Wenjie Ji, Qian Zhao, Jinlong Li, Xinlin Liu, Junxiang Liu, Zhao-Zeng Guo et al. · 2018 · Microbiome
55. High-fiber diet mitigates maternal obesity-induced cognitive and social dysfunction in the offspring via gut-brain axis
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56. Viable bacterial colonization is highly limited in the human intestine in utero
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57. Understanding the variation of microbial community in heavy metals contaminated soil using high throughput sequencing
    Honghong Guo, Mubasher Nasir, Jialong Lv, Yunchao Dai, Jiakai Gao · 2017 · Ecotoxicology and Environmental Safety
58. Gut microbiome-derived phenyl sulfate contributes to albuminuria in diabetic kidney disease
    Koichi Kikuchi, Daisuke Saigusa, Yoshitomi Kanemitsu, Yotaro Matsumoto, Thanai Paxton, Naoto Suzuki, Koki Mise, Hiroaki Yamaguchi, Tomohiro Nakamura, Kei Asaji et al. · 2019 · Nature Communications
59. MitoFish and MiFish Pipeline: A Mitochondrial Genome Database of Fish with an Analysis Pipeline for Environmental DNA Metabarcoding
    Yukuto Sato, Masaki U. Miya, Tsukasa Fukunaga, Tetsuya Sado, Wataru Iwasaki · 2018 · Molecular Biology and Evolution
60. The Endobiota Study: Comparison of Vaginal, Cervical and Gut Microbiota Between Women with Stage 3/4 Endometriosis and Healthy Controls
    Barış Ata, Şule Yıldız, Engin Türkgeldi, Vicente Pérez‐Brocal, Ener Çağrı Dinleyici, Andrés Moyá, Bülent Urman · 2019 · Scientific Reports
61. Humic Acid Fertilizer Improved Soil Properties and Soil Microbial Diversity of Continuous Cropping Peanut: A Three-Year Experiment
    Yan Li, Fang Fěng, Jianlin Wei, Xiaobin Wu, Rongzong Cui, Guosheng Li, Fuli Zheng, Deshui Tan · 2019 · Scientific Reports
62. Impact of 25 years of inorganic fertilization on diazotrophic abundance and community structure in an acidic soil in southern China
    Chao Wang, Manman Zheng, Wenfeng Song, Shilin Wen, Boren Wang, Chunquan Zhu, Ren Fang Shen · 2017 · Soil Biology and Biochemistry
63. Protist taxonomic and functional diversity in soil, freshwater and marine ecosystems
    David Singer, Christophe V. W. Seppey, Guillaume Lentendu, Micah Dunthorn, David Bass, Lassaâd Belbahri, Quentin Blandenier, Didier Debroas, Gerard Arjen de Groot, Colomban de Vargas et al. · 2020 · Environment International
64. Phasing amplicon sequencing on Illumina Miseq for robust environmental microbial community analysis
    Liyou Wu, Chongqing Wen, Yujia Qin, Huaqun Yin, Qichao Tu, Joy D. Van Nostrand, Tong Yuan, Menting Yuan, Ye Deng, Jizhong Z. Zhou · 2015 · BMC Microbiology
65. Comprehensive identification of internal structure and alternative splicing events in circular RNAs
    Yuan Gao, Jinfeng Wang, Yi Zheng, Jinyang Zhang, Shuai Chen, Fangqing Zhao · 2016 · Nature Communications
66. Thirty-one years of rice-rice-green manure rotations shape the rhizosphere microbial community and enrich beneficial bacteria
    Xiao-Xia Zhang, Rui-Jie Zhang, Ju-Sheng Gao, Xiu-Cheng Wang, F. Fan, Xiao-Tong Ma, Huaqun Yin, Cai-Wen Zhang, Kai Feng, Ye Deng · 2017 · Soil Biology and Biochemistry
67. Integrating gut microbiota immaturity and disease‐discriminatory taxa to diagnose the initiation and severity of shrimp disease
    Jinbo Xiong, Jinyong Zhu, Wenfang Dai, Chunming Dong, Qiongfen Qiu, Chenghua Li · 2017 · Environmental Microbiology
68. Metagenomic analysis and functional characterization of the biogas microbiome using high throughput shotgun sequencing and a novel binning strategy
    Stefano Campanaro, Laura Treu, Panagiotis Kougias, Davide De Francisci, Giorgio Valle, İrini Angelidaki · 2016 · Biotechnology for Biofuels
69. CHANGE-seq reveals genetic and epigenetic effects on CRISPR–Cas9 genome-wide activity
    Cícera Regina Lazzarotto, Nikolay L. Malinin, Yichao Li, Ruochi Zhang, Yang Yang, GaHyun Lee, Eleanor Cowley, Yanghua He, Xin Lan, Kasey Jividen et al. · 2020 · Nature Biotechnology
70. Gut metagenomic analysis reveals prominent roles of Lactobacillus and cecal microbiota in chicken feed efficiency
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71. Melatonin prevents obesity through modulation of gut microbiota in mice
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72. Successional Trajectories of Rhizosphere Bacterial Communities over Consecutive Seasons
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73. Advanced Applications of RNA Sequencing and Challenges
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74. The gut microbiota is largely independent of host genetics in regulating fat deposition in chickens
    Chaoliang Wen, Wei Yan, Congjiao Sun, Congliang Ji, Qianqian Zhou, Dexiang Zhang, Jiangxia Zheng, Ning Yang · 2019 · The ISME Journal
75. Environmental remodeling of human gut microbiota and antibiotic resistome in livestock farms
    Jian Ge Sun, Xiao‐Ping Liao, Alaric W. D’Souza, Manish Boolchandani, Shenghui Li, Ke Cheng, José Luis Martínez, Liang Li, You-Jun Feng, Liang‐Xing Fang et al. · 2020 · Nature Communications
76. Akkermansia muciniphila mediates negative effects of IFNγ on glucose metabolism
    Renee L. Greer, Xiaoxi Dong, Ana Carolina Franco de Moraes, Ryszard A. Zielke, Gabriel da Rocha Fernandes, Ekaterina Peremyslova, Stephany Vasquez‐Perez, Alexi A. Schoenborn, Everton Padilha Gomes, Alexandre C. Pereira et al. · 2016 · Nature Communications
77. Diversity and asynchrony in soil microbial communities stabilizes ecosystem functioning
    Cameron Wagg, Yann Hautier, Sarah Pellkofer, Samiran Banerjee, Bernhard Schmid, Marcel G. A. van der Heijden · 2021 · eLife
78. A Critical Assessment of the Microorganisms Proposed to be Important to Enhanced Biological Phosphorus Removal in Full-Scale Wastewater Treatment Systems
    Mikkel Stokholm-Bjerregaard, Simon Jon McIlroy, Marta Nierychlo, Søren Michael Karst, Mads Albertsen, Per Halkjær Nielsen · 2017 · Frontiers in Microbiology
79. Bacterial diversity and composition of alfalfa silage as analyzed by Illumina MiSeq sequencing: Effects of Escherichia coli O157:H7 and silage additives
    Ogunade, I.M., Jiang, Y., Pech Cervantes, A.A., Kim, D.H., Oliveira, A.S., Vyas, D., Weinberg, Z.G., Jeong, K.C., Adesogan, A.T. · 2018 · Journal of Dairy Science
80. Soil aggregation and associated microbial communities modify the impact of agricultural management on carbon content
    Pankaj Trivedi, Manuel Delgado‐Baquerizo, Thomas C. Jeffries, Chanda Trivedi, Ian C. Anderson, Kaitao Lai, M. McNee, Ken C. Flower, Bhupinder Pal Singh, David M. Minkey et al. · 2017 · Environmental Microbiology
81. A census-based estimate of Earth's bacterial and archaeal diversity
    S. Louca, F. Mazel, M. Doebeli, L. Parfrey · 2019 · PLoS Biology
82. Multiplexed analysis of chromosome conformation at vastly improved sensitivity
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83. Functional characterization of the TERRA transcriptome at damaged telomeres
    Antônio Porro, Sascha Feuerhahn, Julien Delafontaine, Harold C. Riethman, Jacques Rougemont, Joachim Lingner · 2014 · Nature Communications
84. Behavioural and neurochemical consequences of chronic gut microbiota depletion during adulthood in the rat
    Hoban, A.E., Moloney, R.D., Golubeva, A.V., McVey Neufeld, K.A., O’Sullivan, O., Patterson, E., Stanton, C., Dinan, T.G., Clarke, G., Cryan, J.F. · 2016 · Neuroscience
85. Quantitative microbiome profiling disentangles inflammation- and bile duct obstruction-associated microbiota alterations across PSC/IBD diagnoses
    Sara Vieira‐Silva, João Sabino, Mireia Valles‐Colomer, Gwen Falony, Gunter Kathagen, Clara Caenepeel, Isabelle Cleynen, Van der Merwe, Séverine Vermeire, Jeroen Raes · 2019 · Nature Microbiology
86. Omega-3 polyunsaturated fatty acids critically regulate behaviour and gut microbiota development in adolescence and adulthood
    Robertson, Ruairi C., Seira Oriach, Clara, Murphy, Kiera, Moloney, Gerard M., Cryan, John F., Dinan, Timothy G., Paul Ross, R., Stanton, Catherine · 2017 · Brain Behavior and Immunity
87. The gene cortex controls mimicry and crypsis in butterflies and moths
    Nicola J. Nadeau, Carolina Pardo‐Díaz, Annabel C. Whibley, Megan A. Supple, Suzanne V. Saenko, Richard W. R. Wallbank, Grace C. Wu, Luana S. Maroja, Laura Ferguson, Joseph J. Hanly et al. · 2016 · Nature
88. A new strategy using nanoscale zero-valent iron to simultaneously promote remediation and safe crop production in contaminated soil
    Yangzhi Liu, Wu Ting, Jason Christopher White, Daohui Lin · 2020 · Nature Nanotechnology
89. Amplification of RNA by an RNA polymerase ribozyme
    Horning, David P., Joyce, Gerald F. · 2016 · Proceedings of the National Academy of Sciences
90. Benchmarking DNA Metabarcoding for Biodiversity-Based Monitoring and Assessment
    Eva Aylagas, Ángel Borja, Xabier Irigoien, Naiara Rodríguez‐Ezpeleta · 2016 · Frontiers in Marine Science
91. Aerobic composting reduces antibiotic resistance genes in cattle manure and the resistome dissemination in agricultural soils
    Min Gou, Hang‐Wei Hu, Yu Jing Zhang, Juntao Wang, Helen L. Hayden, Yue‐Qin Tang, Ji‐Zheng He · 2017 · The Science of The Total Environment
92. Homologous recombination DNA repair deficiency and PARP inhibition activity in primary triple negative breast cancer
    Neha Chopra, Holly Tovey, Alex Pearson, Ros Cutts, Christy Toms, Paula Proszek, Michael J.F. Hubank, Mitch Dowsett, Andrew R Dodson, Frances M Daley et al. · 2020 · Nature Communications
93. The Intestinal Microbiota of Hermetia illucens Larvae Is Affected by Diet and Shows a Diverse Composition in the Different Midgut Regions
    Daniele Bruno, M. Bonelli, Francesca De Filippis, Ilaria Di Lelio, Gianluca Tettamanti, Morena Casartelli, Danilo Ercolini, Silvia Caccia · 2018 · Applied and Environmental Microbiology
94. Carbon content and climate variability drive global soil bacterial diversity patterns
    Manuel Delgado‐Baquerizo, Fernando T. Maestre, Peter B. Reich, Pankaj Trivedi, Yui Osanai, Yu‐Rong Liu, Kelly Hamonts, Thomas C. Jeffries, Brajesh Kumar Singh · 2016 · Ecological Monographs
95. Gut microbiome composition differences among breeds impact feed efficiency in swine
    Matteo Bergamaschi, Francesco Tiezzi, Jeremy Howard, Yi Huang, Kent A. Gray, Constantino Schillebeeckx, Nathan P. McNulty, Christian Maltecca · 2020 · Microbiome
96. The structure and assembly mechanisms of plastisphere microbial community in natural marine environment
    Shengjie Zhang, Yanhua Zeng, Jianming Zhu, Zhonghua Cai, Jin Zhou · 2021 · Journal of Hazardous Materials
97. Interactions between hydrology and water chemistry shape bacterioplankton biogeography across boreal freshwater networks
    Juan Pablo Niño‐García, Clara Ruiz‐González, Paul A. del Giorgio · 2016 · The ISME Journal
98. Deciphering the associations between soil microbial diversity and ecosystem multifunctionality driven by long‐term fertilization management
    Gongwen Luo, Christopher Rensing, Huan Chen, Manqiang Liu, Min Wang, Shiwei Guo, Ning Ling, Qirong Shen · 2017 · Functional Ecology
99. Changes in the gut microbiota composition during pregnancy in patients with gestational diabetes mellitus (GDM)
    Ilario Ferrocino, Valentina Ponzo, Roberto Gambino, Adriana Zarovska, Filomena Leone, Clara Monzeglio, Ilaria Goitre, Rosalba Rosato, Angelo Romano, Giorgio Grassi et al. · 2018 · Scientific Reports
100. Pooled CRISPR interference screening enables genome-scale functional genomics study in bacteria with superior performance
     Tianmin Wang, Changge Guan, Jiahui Guo, Bing Liu, Yinan Wu, Zhen Xie, Chong Zhang, Xin‐Hui Xing · 2018 · Nature Communications