Ecosyste.ms: Papers

10.1038/s41598-020-77201-z

An improved de novo assembling and polishing of Solea senegalensis transcriptome shed light on retinoic acid signalling in larvae
Cited by: 3
Author(s): José Córdoba-Caballero, Pedro Seoane, Fernando M. Jabato, James R. Perkins, Manuel Manchado, M. Gonzalo Claros
Software Mentions: 9
Published: about 4 years ago

10.1186/s13059-019-1755-7

Benchmarking of alignment-free sequence comparison methods
Cited by: 134
Author(s): Andrzej Zieleziński, Hani Z. Girgis, Guillaume Bernard, Chris-André Leimeister, Kujin Tang, Thomas Dencker, Anna Katharina Lau, Sophie Röhling, Jae Jin Choi, Michael S. Waterman, Matteo Comin, Sung‐Hou Kim, Susana Vinga, Jonas S. Almeida, Cheong Xin Chan, Benjamin James, Fengzhu Sun, Burkhard Morgenstern, Wojciech M. Karłowski
Software Mentions: 8
Published: over 5 years ago

10.1093/gigascience/giz003

Comparative analyses identify genomic features potentially involved in the evolution of birds-of-paradise
Cited by: 21
Author(s): Stefan Prost, Ellie E. Armstrong, Johan A. A. Nylander, Gregg W.C. Thomas, Alexander Suh, Bent Petersen, Love Dalén, Brett W. Benz, Mozes P. K. Blom, Eleftheria Palkopoulou, Per G. P. Ericson, Martin Irestedt
Software Mentions: 8
Published: almost 6 years ago

10.1371/journal.pone.0212248

Comparative genome analysis indicates high evolutionary potential of pathogenicity genes in Colletotrichum tanaceti
Cited by: 17
Author(s): Ruvini V. Lelwala, Pasi K. Korhonen, Neil D. Young, Jason B. Scott, Peter K. Ades, Robin B. Gasser, P. W. J. Taylor
Software Mentions: 8
Published: over 5 years ago

10.7554/eLife.63194

Evolutionary dynamics of transposable elements in bdelloid rotifers
Cited by: 21
Author(s): Reuben W. Nowell, Christopher G. Wilson, Pedro Almeida, Philipp H. Schiffer, Diego Fontaneto, Lutz Becks, Fernando Rodríguez, Irina R. Arkhipova, Timothy G. Barraclough
Software Mentions: 7
Published: almost 4 years ago

10.1186/s13059-019-1768-2

Comparative genomic analysis of six Glossina genomes, vectors of African trypanosomes
Cited by: 60
Author(s): Geoffrey M. Attardo, Adly M. M. Abd-Alla, Álvaro Acosta-Serrano, James Allen, Rosemary Bateta, Joshua B. Benoit, Kostas Bourtzis, Jo Caers, Guy Caljon, Mikkel Christensen, David W. Farrow, Markus Friedrich, Aurélie Hua-Van, Emily C. Jennings, Denis M. Larkin, Daniel Lawson, Michael J. Lehane, Vasileios Panagiotis Lenis, Ernesto Lowy-Gallego, Rosaline W. Macharia, Anna R. Malacrida, Heather G. Marco, Daniel Masiga, G. Maslen, Irina Matetovici, Richard P Meisel, Irene K. Meki, Veronika Michalková, Wolfgang J. Miller, Patrick Minx, Paul O. Mireji, Lino Ometto, Andrew G. Parker, Rita V. M. Rio, Clair Rose, Andrew J. Rosendale, Omar Rota‐Stabelli, Grazia Savini, Liliane Schoofs, Francesca Scolari, Martin Swain, Peter Takáč, Chad Tomlinson, George Tsiamis, Jan Van Den Abbeele, Aurélien Vigneron, Jingwen Wang, Wesley C. Warren, Robert M. Waterhouse, Matthew T. Weirauch, Brian L. Weiss, Richard K. Wilson, Xin Zhao, Serap Aksoy
Software Mentions: 7
Published: over 5 years ago

10.7554/eLife.56689

Genome streamlining in a minute herbivore that manipulates its host plant
Cited by: 30
Author(s): Robert Greenhalgh, Wannes Dermauw, Joris J. Glas, Stéphane Rombauts, Nicky Wybouw, Jainy Thomas, Juan M. Alba, Ellen J. Pritham, Saioa Legarrea, René Feyereisen, Yves Van de Peer, Thomas Van Leeuwen, Richard M. Clark, Merijn R. Kant
Software Mentions: 7
Published: about 4 years ago

10.7554/eLife.65394

The whale shark genome reveals patterns of vertebrate gene family evolution
Cited by: 18
Author(s): Milton Tan, Anthony K. Redmond, Helen Dooley, Ryo Nozu, Keiichi Sato, Shigehiro Kuraku, Sergey Koren, Adam M. Phillippy, Alistair D. M. Dove, Timothy D. Read
Software Mentions: 7
Published: over 3 years ago

10.7554/eLife.60176

Chloroplast acquisition without the gene transfer in kleptoplastic sea slugs, Plakobranchus ocellatus
Cited by: 21
Author(s): Taro Maeda, Shunichi Takahashi, Takao Yoshida, Shigeru Shimamura, Yoshihiro Takaki, Yukiko Nagai, Atsushi Toyoda, Yutaka Suzuki, Asuka Arimoto, Hisaki Ishii, Nori Satoh, Tomoaki Nishiyama, Mitsuyasu Hasebe, Tadashi Maruyama, Jun Minagawa, Junichi Obokata, Shuji Shigenobu
Software Mentions: 7
Published: over 3 years ago

10.3390/genes10050381

Back to the Salt Mines: Genome and Transcriptome Comparisons of the Halophilic Fungus Aspergillus salisburgensis and Its Halotolerant Relative Aspergillus sclerotialis
Cited by: 13
Author(s): Hakim Tafer, Caroline Poyntner, Ksenija Lopandić, Katja Sterflinger, Güadalupe Piñar
Software Mentions: 6
Published: over 5 years ago

10.1093/gbe/evaa088

Ampliconic Genes on the Great Ape Y Chromosomes: Rapid Evolution of Copy Number but Conservation of Expression Levels
Cited by: 9
Author(s): Rahulsimham Vegesna, Marta Tomaszkiewicz, Oliver A. Ryder, Rebeca Campos-Sánchez, Paul Medvedev, Michael DeGiorgio, Kateryna D. Makova
Software Mentions: 6
Published: over 4 years ago

10.1093/gigascience/giaa059

Genomic consequences of dietary diversification and parallel evolution due to nectarivory in leaf-nosed bats
Cited by: 16
Author(s): Yocelyn T. Gutiérrez-Guerrero, Enrique Ibarra-Laclette, Carlos Martı́nez del Rio, Josué Barrera‐Redondo, Eria A. Rebollar, Jorge Ortega, Livia León‐Paniagua, Araxi O. Urrutia, Erika Aguirre‐Planter, Luis E. Eguiarte
Software Mentions: 6
Published: over 4 years ago

10.1093/gigascience/giy164

Genome sequence of<i>Malania oleifera</i>, a tree with great value for nervonic acid production
Cited by: 34
Author(s): Chaoqun Xu, Hui Liu, Shanshan Zhou, Dongxu Zhang, Zhao Wang, Wang Si-hai, Chen Fu, Yuze Sun, Shuai Nie, Kai‐Hua Jia, Si-Qian Jiao, Rengang Zhang, Quanzheng Yun, Wei Guan, Xuewen Wang, Qiong Gao, Jeffrey L. Bennetzen, Fatemeh Maghuly, Ilga Porth, Yves Van de Peer, Xiaoru Wang, Yongpeng Ma, Jian‐Feng Mao
Software Mentions: 6
Published: almost 6 years ago

10.1007/s00239-021-10012-6

Dynamic Molecular Evolution of Mammalian Homeobox Genes: Duplication, Loss, Divergence and Gene Conversion Sculpt PRD Class Repertoires
Cited by: 8
Author(s): Thomas D. Lewin, Amy H. Royall, Peter W.H. Holland
Software Mentions: 6
Published: over 3 years ago

10.1038/s42003-021-01716-y

Simple sequence repeats drive genome plasticity and promote adaptive evolution in penaeid shrimp
Cited by: 28
Author(s): Jianbo Yuan, Xiaojun Zhang, Min Wang, Yamin Sun, Xianhui Qin, Shihao Li, Yang Yu, Yi Gao, Fei Liu, Jie Kong, Guangyi Fan, Chengsong Zhang, Lu Feng, Jianhai Xiang, Fuhua Li
Software Mentions: 5
Published: almost 4 years ago

10.1038/s42003-021-01659-4

Amynthas corticis genome reveals molecular mechanisms behind global distribution
Cited by: 4
Author(s): Xing Wang, Yi Zhang, Yufeng Zhang, Mingming Kang, Yuanbo Li, Samuel W. James, Yang Yang, Yang Bi, Hao Jiang, Yi Zhao, Zhenjun Sun
Software Mentions: 5
Published: almost 4 years ago

10.1186/s12864-020-6495-2

Whole-genome sequencing of wild Siberian musk deer (Moschus moschiferus) provides insights into its genetic features
Cited by: 8
Author(s): Yang Li, Menggen Dalai, Rongguo Su, Weili Lin, Myagmarsuren Erdenedalai, Batkhuu Luvsantseren, Chimedragchaa Chimedtseren, Zhen Wang, Surong Hasi
Software Mentions: 5
Published: almost 5 years ago

10.1002/advs.201901672

Comparison of <i>Arachis monticola</i> with Diploid and Cultivated Tetraploid Genomes Reveals Asymmetric Subgenome Evolution and Improvement of Peanut
Cited by: 38
Author(s): Dongmei Yin, Changmian Ji, Qingxin Song, Wan–Ke Zhang, Xingguo Zhang, Kunkun Zhao, Charles Y. Chen, Chuan Tang Wang, He Guo, Zhe Liang, Xingli Ma, Zhongfeng Li, Yueyi Tang, Yuejun Wang, Ké Li, Longlong Ning, Hui Zhang, Kai Zhao, Xuming Li, Haiyan Yu, Lei Yan, Mingcheng Wang, Liming Ma, Hongkun Zheng, Yijing Zhang, Jinsong Zhang, Wei Hu, Z Jeffrey Chen
Software Mentions: 5
Published: about 5 years ago

10.1111/1755-0998.13257

High quality genome of <i>Erigeron breviscapus</i> provides a reference for herbal plants in Asteraceae
Cited by: 19
Author(s): Simei He, Dong Xiao, Guanghui Zhang, Wei Fan, Shengchang Duan, Hong Shi, Dawei Li, Rui Li, Cuizhi Geng, Guangqiang Long, Yan Zhao, Mo Chen, Mi Yan, Jianli Yang, Yingchun Lu, Yanli Zhou, Wei Chen, Yang Dong, Shengchao Yang
Software Mentions: 5
Published: about 4 years ago

10.1038/s42003-018-0122-7

Genomic analysis of Sparus aurata reveals the evolutionary dynamics of sex-biased genes in a sequential hermaphrodite fish
Cited by: 44
Author(s): Marianna Pauletto, Tereza Manousaki, Serena Ferraresso, Massimiliano Babbucci, Alexandros Tsakogiannis, Bruno Louro, Nicola Vitulo, Viet Ha Quoc, R. Carraro, Daniela Bertotto, Rafaella Franch, Francesco Maroso, Muhammad Aslam, Anna K. Sonesson, Barbara Simionati, G Malacrida, Alessandro Cestaro, Stefano Caberlotto, Elena Sarropoulou, C. C. Mylonas, Deborah M. Power, Tomaso Patarnello, Adelino V.M. Canário, Costas S. Tsigenopoulos, Luca Bargelloni
Software Mentions: 5
Published: over 6 years ago

10.1038/s42003-021-01859-y

A multi-omic characterization of temperature stress in a halotolerant Scenedesmus strain for algal biotechnology
Cited by: 16
Author(s): Sara Calhoun, Tisza Ann Szeremy Bell, Lukas R. Dahlin, Yuliya A. Kunde, Kurt LaButti, Katherine Louie, Andrea Kuftin, Daniel Treen, David Dilworth, Sirma Mihaltcheva, Christopher Daum, Benjamin P. Bowen, Trent Northen, Michael T. Guarnieri, Shawn R. Starkenburg, Igor V. Grigoriev
Software Mentions: 5
Published: almost 4 years ago

10.1038/s42003-018-0094-7

Evidence of non-tandemly repeated rDNAs and their intragenomic heterogeneity in Rhizophagus irregularis
Cited by: 53
Author(s): Taro Maeda, Yuuki Kobayashi, Hiromu Kameoka, Nao Okuma, Nobuo Takeda, Katsushi Yamaguchi, Takahiro Bino, Shuji Shigenobu, Masayoshi Kawaguchi
Software Mentions: 5
Published: over 6 years ago

10.1186/s12862-017-1064-2

Rapid turnover of effectors in grass powdery mildew (Blumeria graminis)
Cited by: 45
Author(s): Fabrizio Menardo, Coraline R. Praz, Thomas Wicker, Beat Keller
Software Mentions: 5
Published: about 7 years ago

10.1038/s41438-021-00487-1

Combined genomic, transcriptomic, and metabolomic analyses provide insights into chayote (Sechium edule) evolution and fruit development
Cited by: 34
Author(s): Anzhen Fu, Qing Wang, Jianlou Mu, Lili Ma, Changlong Wen, Xiaoyan Zhao, Lipu Gao, Jian Li, Kai Shi, Yunxiang Wang, Xuechuan Zhang, Xuewen Zhang, Fengling Wang, Donald Grierson, Jinhua Zuo
Software Mentions: 5
Published: almost 4 years ago

10.1371/journal.pone.0212365

Mycobacteriophage CRB2 defines a new subcluster in mycobacteriophage classification
Cited by: 4
Author(s): Cristian Alejandro Suárez, Jorgelina Judith Franceschelli, Héctor Ricardo Morbidoni
Software Mentions: 5
Published: almost 6 years ago

10.1093/molbev/msw285

Rapid expansion of immune-related gene families in the house fly, <i>Musca domestica</i>
Cited by: 23
Author(s): Timothy B. Sackton, Brian P. Lazzaro, Andrew G. Clark
Software Mentions: 5
Published: almost 8 years ago

10.1186/s12864-021-07902-w

Increased abundance of secreted hydrolytic enzymes and secondary metabolite gene clusters define the genomes of latent plant pathogens in the Botryosphaeriaceae
Cited by: 16
Author(s): Jan Hendrik Nagel, Michael J. Wingfield, Bernard Slippers
Software Mentions: 4
Published: over 3 years ago

10.1186/s12864-021-07558-6

The draft genome of the specialist flea beetle Altica viridicyanea (Coleoptera: Chrysomelidae)
Cited by: 5
Author(s): Huai‐Jun Xue, Yiwei Niu, Kari A. Segraves, Rui Nie, Ya Jing Hao, Li Li Zhang, Xin Cheng, Xuewen Zhang, Wen Zhu Li, Run Sheng Chen, Xing Yang
Software Mentions: 4
Published: over 3 years ago

10.1186/s12864-019-6397-3

Host plant adaptation in the polyphagous whitefly, Trialeurodes vaporariorum, is associated with transcriptional plasticity and altered sensitivity to insecticides
Cited by: 25
Author(s): Adam Pym, Kumar Saurabh Singh, A. Nordgren, T.G. Emyr Davies, Christoph Zimmer, Jan Eliáš, Russell Slater, Chris Bass
Software Mentions: 4
Published: about 5 years ago

10.1186/s12870-019-1708-z

The wild sweetpotato (Ipomoea trifida) genome provides insights into storage root development
Cited by: 30
Author(s): Ming Li, Songtao Yang, Wei Xü, Zhien Pu, Jiayi Feng, Zhangying Wang, Cong Zhang, Peng Ma, Chunguang Du, Feng Lin, Changhe Wei, Shuai Qiao, Hongda Zou, Lei Zhang, Yán Li, Huan Yang, Anzhong Liao, Wei Song, Zhongren Zhang, Ji Li, Kai Wang, Yizheng Zhang, Hao Lin, Jinbo Zhang, Wen-Fang Tan
Software Mentions: 4
Published: over 5 years ago

10.1186/s13059-016-1145-3

Rapid transcriptional plasticity of duplicated gene clusters enables a clonally reproducing aphid to colonise diverse plant species
Cited by: 539
Author(s): Thomas C. Mathers, Yazhou Chen, Gemy Kaithakottil, Fabrice Legeai, Sam T. Mugford, Patrice Bâa-Puyoulet, Anthony Bretaudeau, Bernardo Clavijo, Stefano Colella, Olivier Collin, Tamás Dalmay, Thomas Derrien, Honglin Feng, Toni Gabaldón, Anna Jordan, Irene Julca, Graeme J. Kettles, Krissana Kowitwanich, Dominique Lavenier, Paolo Lenzi, Sara López-Gomollón, Damian Loska, Daniel Mapleson, Florian Maumus, Simon Moxon, Daniel D. Price, Akiko Sugio, Manuella van Munster, Marilyne Uzest, Darren Waite, Georg Jander, Denis Tagu, Alex C. C. Wilson, Cock van Oosterhout, David Swarbreck, Saskia A. Hogenhout
Software Mentions: 4
Published: almost 8 years ago

10.1186/gb-2013-14-12-r141

Obligate mutualism within a host drives the extreme specialization of a fig wasp genome
Cited by: 79
Author(s): Jin‐Hua Xiao, Zhen Yue, Ling-Yi Jia, Xinhua Yang, Lihua Niu, Zhuo Wang, Peng Zhang, Bao‐Fa Sun, Shunmin He, Zi Li, Tuanlin Xiong, Xintian Wen, Haifeng Gu, Bo Wang, John H. Werren, Robert W. Murphy, David A. Wheeler, Li‐Ming Niu, Guang-Chang Ma, Ting Tang, Sheng‐Nan Bian, Ningxin Wang, Caiqiong Yang, Nan Wang, Yanlong Fu, Wenzhu Li, Soojin V. Yi, Xingyu Yang, Qing Zhou, Changxin Lu, Chunyan Xu, Li He, Lili Yu, Ming Chen, Yawen Zheng, Shaowei Wang, Shuang Zhao, Yanhong Li, Yangyang Yu, Xiaoju Qian, Yuchen Cai, Lianle Bian, Shu Zhang, Junyi Wang, Ye Yin, Hui Xiao, Guan-Hong Wang, Hui Yu, Wei-Jian Wu, James M. Cook, Jun Wang, Dawei Huang
Software Mentions: 4
Published: almost 12 years ago

10.1186/s13059-020-02198-7

The Tetracentron genome provides insight into the early evolution of eudicots and the formation of vessel elements
Cited by: 17
Author(s): Pingli Liu, Xi Zhang, Jian‐Feng Mao, Yan-Ming Hong, Rengang Zhang, E Yilan, Shuai Nie, Kai‐Hua Jia, Chen-Kun Jiang, Jian He, Weiwei Shen, Qizouhong He, Wenqing Zheng, Samar H. Abbas, Pawan Kumar Jewaria, Xue Tian, Changjun Liu, Xueyu Jiang, Yafang Yin, Bo Liu, Li Wang, Biao Jin, Yongpeng Ma, Zongbo Qiu, Frantǐsek Baluška, Jozef Šamaj, Xin-Qiang He, Shihui Niu, Jianbo Xie, Lei Xie, Huimin Xu, Hongzhi Kong, Song Ge, Richard A. Dixon, Yuannian Jiao, Jinxing Lin
Software Mentions: 4
Published: about 4 years ago

10.1038/s41438-021-00471-9

The genome of Magnolia biondii Pamp. provides insights into the evolution of Magnoliales and biosynthesis of terpenoids
Cited by: 27
Author(s): Shanshan Dong, Min Liu, Yang Liu, Fei Chen, Ting Yang, Lu Chen, Xingtan Zhang, Xing Guo, Dongming Fang, Linzhou Li, Tian Deng, Zhen Yao, Xiaoan Lang, Yiqing Gong, Ernest Wu, Yaling Wang, Yamei Shen, Xun Gong, Huan Liu, Shouzhou Zhang
Software Mentions: 4
Published: almost 4 years ago

10.1186/1471-2164-12-5

The 'PUCE CAFE' Project: the First 15K Coffee Microarray, a New Tool for Discovering Candidate Genes correlated to Agronomic and Quality Traits
Cited by: 23
Author(s): Isabelle Privat, Amélie Bardil, Aureliano Bombarely, Dany Séverac, Christelle Le Dantec, Ivanna Fuentes, Lukas A. Mueller, Thierry Joët, David Pot, Séverine Foucrier, Stéphane Dussert, Thierry Leroy, Laurent Journot, Alexandre de Kochko, Claudine Campa, Marie‐Christine Combes, Philippe Lebailly, Benoît Bertrand
Software Mentions: 4
Published: almost 14 years ago

10.1186/s12864-015-1624-z

Distinctive expansion of gene families associated with plant cell wall degradation, secondary metabolism, and nutrient uptake in the genomes of grapevine trunk pathogens
Cited by: 132
Author(s): Abraham Morales‐Cruz, Katherine C. H. Amrine, Bárbara Blanco-Ulate, Daniel P. Lawrence, Renaud Travadon, Philippe E. Rolshausen, Kendra Baumgartner, Dario Cantu
Software Mentions: 4
Published: over 9 years ago

10.1093/gigascience/giz112

Hybrid de novo genome assembly of Chinese chestnut (Castanea mollissima)
Cited by: 49
Author(s): Yu Xing, Yang Liu, Qing Zhang, Xinghua Nie, Yamin Sun, Zhiyong Zhang, Huchen Li, Kefeng Fang, Guangpeng Wang, Hongwen Huang, Ton Bisseling, Qingqin Cao, Ling Qin
Software Mentions: 4
Published: over 5 years ago

10.1038/s41438-021-00531-0

Whole-genome resequencing of Osmanthus fragrans provides insights into flower color evolution
Cited by: 28
Author(s): Chen Hong-guo, Xiangling Zeng, Jie Yang, Xuan Cai, Yumin Shi, Rencheng Zheng, Zhenqi Wang, Junyi Liu, Xiao Su Yi, Siwei Xiao, Qiang Fu, Jingjing Zou, Caiyun Wang
Software Mentions: 4
Published: over 3 years ago

10.1093/gigascience/giaa036

Chromosome-level reference genome of the jellyfish Rhopilema esculentum
Cited by: 16
Author(s): Yunfeng Li, Lei Gao, Yongjia Pan, Meilin Tian, Yulong Li, Chongbo He, Ying Dong, Yamin Sun, Zunchun Zhou
Software Mentions: 4
Published: over 4 years ago

10.1186/s12864-019-5629-x

The lichen symbiosis re-viewed through the genomes of Cladonia grayi and its algal partner Asterochloris glomerata
Cited by: 82
Author(s): Daniele Armaleo, Olaf Müller, François Lutzoni, Ólafur S. Andrésson, Guillaume Blanc, Helge B. Bode, F. Collart, Francesco Dal Grande, Fred S. Dietrich, Igor V. Grigoriev, Suzanne Joneson, Alan Kuo, Peter E. Larsen, John M. Logsdon, David López, Francis Martin, Susan May, Tami McDonald, Sabeeha Merchant, Vivian Miao, Emmanuelle Morin, Ryoko Oono, Matteo Pellegrini, Nimrod D. Rubinstein, M. Virginia Sanchez‐Puerta, Elizabeth Savelkoul, Imke Schmitt, Jason C. Slot, Darren M. Soanes, Péter Szövényi, Nicholas J. Talbot, Claire Veneault‐Fourrey, Basil Britto Xavier
Software Mentions: 4
Published: over 5 years ago

10.1016/j.gpb.2019.01.006

Global Analysis of Gene Expression Profiles Provides Novel Insights into the Development and Evolution of the Large Crustacean Eriocheir sinensis
Cited by: 3
Author(s): Jun Wang, Xiaowen Chen, Funan He, Xian‐Rong Song, Shu Huang, Wucheng Yue, Yipei Chen, Zhixi Su
Software Mentions: 4
Published: over 4 years ago

10.1186/s12864-021-07897-4

A chromosome-level genome assembly of Cairina moschata and comparative genomic analyses
Cited by: 4
Author(s): Jun Fan, Yaoxin Jiang, Wenxuan Wang, Changyi Xiao, Ruiyi Lin, Tingting Xie, Wing‐Kin Sung, Shijun Li, Ivan Jakovlić, Jianhai Chen, Xiaoyong Du
Software Mentions: 4
Published: over 3 years ago

10.1186/1471-2164-15-549

Genome sequencing of four Aureobasidium pullulans varieties: biotechnological potential, stress tolerance, and description of new species
Cited by: 239
Author(s): Cene Gostinčar, Robin A. Ohm, Tina Kogej, Silva Sonjak, Monika Turk, Janja Zajc, Polona Zalar, Martín Grube, Hui Sun, James Han, Aarti Sharma, Jennifer Chiniquy, Chew Yee Ngan, Anna Lipzen, Kerrie Barry, Igor V. Grigoriev, Nina Gunde‐Cimerman
Software Mentions: 4
Published: almost 11 years ago

10.1111/1462-2920.15554

Comparative genomics reveals a core gene toolbox for lifestyle transitions in Hypocreales fungi
Cited by: 7
Author(s): Baojun Wu, Murray P. Cox
Software Mentions: 4
Published: over 3 years ago

10.1534/g3.116.033308

Genomic, Transcriptomic, and Proteomic Analysis Provide Insights Into the Cold Adaptation Mechanism of the Obligate Psychrophilic Fungus <i>Mrakia psychrophila</i>
Cited by: 37
Author(s): Su Yao, Xianzhi Jiang, Wenping Wu, Manman Wang, Muhammad Imran Hamid, Meichun Xiang, Xingzhong Liu
Software Mentions: 4
Published: about 8 years ago

10.1371/journal.pone.0058294

Sequencing and Comparative Analysis of the Straw Mushroom (Volvariella volvacea) Genome
Cited by: 128
Author(s): Dapeng Bao, Ming Gong, Huajun Zheng, Mingjie Chen, Liang Zhang, Hong Wang, Jianping Jiang, Lin Wu, Yaping Zhu, Gang Zhu, Yan Zhou, Chuanhua Li, Shengyue Wang, Yan Zhao, Guoping Zhao, Qian Tan
Software Mentions: 4
Published: almost 12 years ago

10.1093/gigascience/giz136

Trochodendron aralioides, the first chromosome-level draft genome in Trochodendrales and a valuable resource for basal eudicot research
Cited by: 20
Author(s): Joeri S. Strijk, Damien Daniel Hinsinger, Fengping Zhang, Kaihua Cao
Software Mentions: 4
Published: about 5 years ago

10.1186/s12915-021-01081-6

Genome of the pincer wasp Gonatopus flavifemur reveals unique venom evolution and a dual adaptation to parasitism and predation
Cited by: 13
Author(s): Yi Yang, Xinhai Ye, Cong Thuan Dang, Yunshen Cao, Rui Hong, Yu Sun, Shan Xiao, Mei Yang, Xu Le, Qi Fang, Huamei Xiao, Fēi Li, Gōngyín Yè
Software Mentions: 4
Published: over 3 years ago

10.1186/s12862-019-1364-9

Evolution of salivary glue genes in Drosophila species
Cited by: 15
Author(s): Jean-Luc Da Lage, Gregg W.C. Thomas, Magalie Bonneau, Virginie Courtier‐Orgogozo
Software Mentions: 4
Published: almost 6 years ago

10.1186/s13059-021-02333-y

Genomic insights into the origin, domestication and genetic basis of agronomic traits of castor bean
Cited by: 28
Author(s): Wei Xu, Di Wu, Tianquan Yang, Chao Sun, Zaiqing Wang, Bing Han, Shibo Wu, Anmin Yu, Mark A. Chapman, Sammy Muraguri, Qing Tan, Wenbo Wang, Zhigui Bao, Aizhong Liu, Li D
Software Mentions: 4
Published: over 3 years ago

10.1093/database/bav096

Ensembl comparative genomics resources
Cited by: 315
Author(s): Javier Herrero, Matthieu Muffato, Kathryn Beal, Stephen Fitzgerald, Leo I. Gordon, Miguel Pignatelli, Albert J. Vilella, Stephen M. J. Searle, M Ridwan Amode, Simon Brent, William Spooner, Eugene Kulesha, Andy Yates, Paul Flicek
Software Mentions: 4
Published: almost 9 years ago

10.1093/gigascience/giab037

The genome of the venomous snail <i>Lautoconus ventricosus</i> sheds light on the origin of conotoxin diversity
Cited by: 21
Author(s): José Ramón Pardos-Blas, Iker Irisarri, Samuel Abalde, Carlos M.L. Afonso, Manuel Jiménez‐Tenorio, Rafael Zardoya
Software Mentions: 4
Published: over 3 years ago

10.1093/gigascience/gix109

Genome sequence of the small brown planthopper, Laodelphax striatellus
Cited by: 90
Author(s): Jiachen Zhu, Feng Jiang, Xianhui Wang, Pengcheng Yang, Yan-Yuan Bao, Wan Zhao, Wei Wang, Hong Liang, Qianshuo Wang, Na Cui, Jing Li, Xiaofang Chen, Luo Li, Jianping Yu, Le Kang, Feng Cui
Software Mentions: 4
Published: about 7 years ago

10.1186/s12864-018-4739-1

Whole genome and transcriptome analysis reveal adaptive strategies and pathogenesis of Calonectria pseudoreteaudii to Eucalyptus
Cited by: 14
Author(s): Xiaozhen Ye, Zhenhui Zhong, Hongyi Liu, Lian‐Yu Lin, Mengmeng Guo, Wenhui Guo, Zonghua Wang, Qinghua Zhang, Li Feng, Guodong Lu, Feiping Zhang, Quanzhu Chen
Software Mentions: 3
Published: over 6 years ago

10.1186/1471-2164-14-617

Genome and transcriptome sequencing of the halophilic fungus Wallemia ichthyophaga: haloadaptations present and absent
Cited by: 99
Author(s): Janja Zajc, Yongfeng Liu, Wenkui Dai, Zhenyu Yang, Jingzhi Hu, Cene Gostinčar, Nina Gunde‐Cimerman
Software Mentions: 3
Published: over 11 years ago

10.3390/ijms22169002

Insights into the Host Specificity of a New Oomycete Root Pathogen, Pythium brassicum P1: Whole Genome Sequencing and Comparative Analysis Reveals Contracted Regulation of Metabolism, Protein Families, and Distinct Pathogenicity Repertoire
Cited by: 2
Author(s): Mojtaba Mohammadi, Eric A. Smith, M. E. Stanghellini, Rakesh Kaundal
Software Mentions: 3
Published: over 3 years ago

10.1186/s12864-021-07837-2

Comparative analyses of the Hymenoscyphus fraxineus and Hymenoscyphus albidus genomes reveals potentially adaptive differences in secondary metabolite and transposable element repertoires
Cited by: 5
Author(s): Malin Elfstrand, Jun Chen, Michelle Cleary, Sandra Halecker, Katarina Ihrmark, Magnus Karlsson, Kateryna Davydenko, Jan Stenlid, Marc Stadler, Mikael Brandström Durling
Software Mentions: 3
Published: over 3 years ago

10.1186/s13059-015-0837-4

Genomic legacy of the African cheetah, Acinonyx jubatus
Cited by: 159
Author(s): Pavel Dobrynin, Shi Ping Liu, Gaik Tamazian, Zijun Xiong, Andrey A. Yurchenko, Ksenia Krasheninnikova, Sergei Kliver, Anne Schmidt‐Küntzel, Klaus‐Peter Koepfli, Warren E. Johnson, Lukas F. K. Kuderna, Raquel García-Pérez, Marc de Manuel, Ricardo Godinez, Aleksey Komissarov, Alex Makunin, Vladimir Brukhin, Wei‐Lin Qiu, Long Zhang, Fang Li, Jine Yi, Carlos A. Driscoll, Agostinho Antunes, Tarás K. Oleksyk, Eduardo Eizirik, Polina L. Perelman, Melody E. Roelke, David E. Wildt, Mark Diekhans, Tomàs Marquès‐Bonet, Laurie Marker, Jong Bhak, Jun Wang, Guojie Zhang, Stephen J. O’Brien
Software Mentions: 3
Published: about 9 years ago

10.1186/s12864-018-4440-4

Ceratocystis cacaofunesta genome analysis reveals a large expansion of extracellular phosphatidylinositol-specific phospholipase-C genes (PI-PLC)
Cited by: 18
Author(s): Eddy Patricia López Molano, Odalys García Cabrera, Juliana José, Leandro Costa do Nascimento, Marcelo Falsarella Carazzolle, Paulo José Pereira Lima Teixeira, Javier Correa Álvarez, Ricardo Augusto Tiburcio, Paulo Massanari Tokimatu Filho, G.M.A. Lima, Rafael Victório Carvalho Güido, Thamy Lívia Ribeiro Corrêa, Adriana Franco Paes Leme, Piotr A. Mieczkowski, Gonçalo Amarante Guimarães Pereira
Software Mentions: 3
Published: almost 7 years ago

10.1186/1471-2164-15-294

Genome sequence and transcriptome analyses of the thermophilic zygomycete fungus Rhizomucor miehei
Cited by: 39
Author(s): Peng Zhou, Guoqiang Zhang, Shangwu Chen, Zhengqiang Jiang, Yanbin Tang, Bernard Henrissat, Qiaojuan Yan, Shaoqing Yang, Chin‐Fu Chen, Bing Zhang, Zhenglin Du
Software Mentions: 3
Published: over 10 years ago

10.3390/genes11010027

Draft Genomes of Two Artocarpus Plants, Jackfruit (A. heterophyllus) and Breadfruit (A. altilis)
Cited by: 28
Author(s): Sunil Kumar Sahu, Min Ling, Anna Yssel, Robert Kariba, Samuel Muthemba, Sanjie Jiang, Bo Song, Prasad S. Hendre, Alice Muchugi, Ramni Jamnadass, Shu Min Kao, Jonathan Featherston, Nyree J. C. Zerega, Xun Xu, Huanming Yang, Allen Van Deynze, Yves Van de Peer, Xin Liu, Sunil Kumar Sahu
Software Mentions: 3
Published: about 5 years ago

10.1038/s41598-020-65487-y

Genome sequence and comparative analysis of reindeer (Rangifer tarandus) in northern Eurasia
Cited by: 28
Author(s): Melak Weldenegodguad, Kisun Pokharel, Ming Yao, Mervi Honkatukia, Jaana Peippo, Tiina Reilas, Knut Røed, Juha Kantanen
Software Mentions: 3
Published: over 4 years ago

10.3390/insects12090815

Adaptation of Fig Wasps (Agaodinae) to Their Host Revealed by Large-Scale Transcriptomic Data
Cited by: 3
Author(s): Lianfu Chen, Simon T. Segar, Bhanumas Chantarasuwan, Da‐Mien Wong, Rong Wang, Xiaoyong Chen, Hui Yu
Software Mentions: 3
Published: over 3 years ago

10.1186/s13059-017-1319-7

Alignment-free sequence comparison: benefits, applications, and tools
Cited by: 337
Author(s): Andrzej Zieleziński, Susana Vinga, Jonas S. Almeida, Wojciech M. Karłowski
Software Mentions: 3
Published: about 7 years ago

10.1534/g3.120.401014

Independent Whole-Genome Duplications Define the Architecture of the Genomes of the Devastating West African Cacao Black Pod Pathogen <i>Phytophthora megakarya</i> and Its Close Relative <i>Phytophthora palmivora</i>
Cited by: 13
Author(s): Abraham Morales‐Cruz, Shahzad Ali, Andrea Minio, Rosa Figueroa‐Balderas, Jadran F. García, Takao Kasuga, Alina S. Puig, Jean-Philippe Marelli, Bryan A. Bailey, Dario Cantu
Software Mentions: 3
Published: over 4 years ago

10.1038/s41598-019-41457-x

The genome of the arapaima (Arapaima gigas) provides insights into gigantism, fast growth and chromosomal sex determination system
Cited by: 25
Author(s): Kang Du, Sven Wuertz, Mateus Contar Adolfi, Susanne Kneitz, Matthias Stöck, Marcos Antônio de Oliveira, Rafael Henrique Nóbrega, Jenny Ormanns, Werner Kloas, Romain Féron, Christophe Klopp, Hugues Parrinello, Laurent Journot, Shunping He, John H. Postlethwait, Axel Meyer, Yann Guiguen, Manfred Schartl
Software Mentions: 3
Published: almost 6 years ago

10.1038/s41598-020-74814-2

Reference transcriptomes and comparative analyses of six species in the threatened rosewood genus Dalbergia
Cited by: 17
Author(s): Tin Hang Hung, Thea So, Syneath Sreng, Bansa Thammavong, Chaloun Boounithiphonh, David Boshier, John Mackay
Software Mentions: 3
Published: about 4 years ago

10.1093/gigascience/giaa132

Chromosomal genome of <i>Triplophysa bleekeri</i> provides insights into its evolution and environmental adaptation
Cited by: 18
Author(s): Dengyue Yuan, Xuehui Chen, Haoran Gu, Ming Zou, Yu Zeng, Jian Fang, Wenjing Tao, Xiangyan Dai, Shijun Xiao, Zhijian Wang
Software Mentions: 3
Published: about 4 years ago

10.1038/s41438-021-00551-w

A high-quality genome assembly of <i>Morinda officinalis</i>, a famous native southern herb in the Lingnan region of southern China
Cited by: 15
Author(s): Jihua Wang, Shiqiang Xu, Mei Yu, Shuang Cai, Yan Gu, Minyang Sun, Zhiyao Liang, Yong Xiao, Muqing Zhang, Shan Yang
Software Mentions: 3
Published: over 3 years ago

10.3389/fgene.2020.00701

Chromosome Level Genome Assembly of Andrographis paniculata
Cited by: 11
Author(s): Ying Liang, Shanshan Chen, Kunhua Wei, Zijiang Yang, Shengchang Duan, Yihui Du, Peng Qu, Miao Jin, Wei Chen, Yang Dong
Software Mentions: 3
Published: over 4 years ago

10.1038/s41438-020-0269-5

A high-quality genome provides insights into the new taxonomic status and genomic characteristics of Cladopus chinensis (Podostemaceae)
Cited by: 9
Author(s): Ting Xue, Xinqing Zheng, Duo Chen, Limin Liang, Nan Chen, Zhen Huang, Wenfang Fan, Jiannan Chen, Chengsong Wan, Shuai Chen, Jinmao Zhu, Binghua Chen, Xingtan Zhang, Youqiang Chen
Software Mentions: 3
Published: over 4 years ago

10.1186/s12864-018-4448-9

The invasive MED/Q Bemisia tabaci genome: a tale of gene loss and gene gain
Cited by: 37
Author(s): Wen Xie, Xin Yang, Chunhai Chen, Zezhong Yang, Long Guo, Dan Wang, Jinqun Huang, Hailin Zhang, Yanan Wen, Jinyang Zhao, Qingjun Wu, Shaoli Wang, Brad S. Coates, Xuguo Zhou, Youjun Zhang
Software Mentions: 3
Published: almost 7 years ago

10.1093/gigascience/giaa006

Chromosomal-level assembly of Juglans sigillata genome using Nanopore, BioNano, and Hi-C analysis
Cited by: 28
Author(s): Delu Ning, Wu Tao, Xiao Liang-jun, Ting Ma, Wen‐Liang Fang, Dong Run-quan, Fuliang Cao
Software Mentions: 3
Published: almost 5 years ago

10.1371/journal.pbio.2003790

The sea cucumber genome provides insights into morphological evolution and visceral regeneration
Cited by: 164
Author(s): Xiaojun Zhang, Lina Sun, Jianbo Yuan, Yamin Sun, Yi Gao, Libin Zhang, Shihao Li, Hui Dai, Jean‐François Hamel, Xianhui Qin, Yang Yu, Shilin Liu, Wenchao Lin, Kaimin Guo, Shiwei Jin, Peng Xu, Kenneth B. Storey, Pin Huan, Tao Zhang, Yi Zhou, Jiquan Zhang, Chenggang Lin, Xiaoni Li, Lili Xing, Da Huo, Mingzhe Sun, Lei Wang, Annie Mercier, Fuhua Li, Hongsheng Yang, Jianhai Xiang
Software Mentions: 3
Published: about 7 years ago

10.1002/pld3.232

Draft genomes of two outcrossing wild rice, <i>Oryza rufipogon</i> and <i>O. longistaminata</i> , reveal genomic features associated with mating‐system evolution
Cited by: 8
Author(s): Wei Li, Qun‐Jie Zhang, Ting Zhu, Yan Tong, Kui Li, Cong Shi, Yun Zhang, Yun‐Long Liu, Jianjun Jiang, Yuan Liu, Enhua Xia, Hui Huang, Liping Zhang, Dan Zhang, Chao Shi, Wenkai Jiang, Yanjie Zhao, Shu‐Yan Mao, Jun-Ying Jiao, Peng Xu, Lili Yang, Li‐Zhi Gao
Software Mentions: 3
Published: over 4 years ago

10.1111/pbi.13499

The celery genome sequence reveals sequential paleo‐polyploidizations, karyotype evolution and resistance gene reduction in apiales
Cited by: 55
Author(s): Xiaoming Song, Pengchuan Sun, Jiaqing Yuan, Ke Gong, Nan Li, Fanbo Meng, Zhikang Zhang, Xinyu Li, Jingjing Hu, Jinpeng Wang, Qing Yang, Beibei Jiao, Fulei Nie, Tao Liu, Wei Chen, Shuyan Feng, Qiaoying Pei, Tong Yu, Xi Kang, Wei Zhao, Chunlin Cui, Ying Yu, Tong Wu, Lanxing Shan, Man Liu, Zhiji Qin, Hao Lin, Rajeev K. Varshney, Xiuqing Li, Andrew H. Paterson, Xiyin Wang
Software Mentions: 3
Published: about 4 years ago

10.1007/s00425-021-03717-x

Large-scale gene gains and losses molded the NLR defense arsenal during the Cucurbita evolution
Cited by: 5
Author(s): Giuseppe Andolfo, Cristina S. Sánchez, Joaquı́n Cañizares, María Belén Picó, Maria Raffaella Ercolano
Software Mentions: 3
Published: over 3 years ago

10.1186/s12862-015-0550-7

Saprophytic and pathogenic fungi in the Ceratocystidaceae differ in their ability to metabolize plant-derived sucrose
Cited by: 32
Author(s): Magriet A. van der Nest, Emma Theodora Steenkamp, Alistair R. McTaggart, Conrad Trollip, T. Godlonton, E. Sauerman, Danielle Roodt, Kershney Naidoo, Martin Petrus Albertus Coetzee, P. Markus Wilken, Michael J. Wingfield, Brenda D. Wingfield
Software Mentions: 3
Published: about 9 years ago

10.1186/s12864-016-2736-9

Molecular phylogeny and dynamic evolution of disease resistance genes in the legume family
Cited by: 42
Author(s): Fengya Zheng, Haiyang Wu, Rongzhi Zhang, Shiming Li, Weiming He, Fuk‐Ling Wong, Genying Li, Shancen Zhao, Hon‐Ming Lam
Software Mentions: 3
Published: over 8 years ago

10.1093/gigascience/giy044

Whole-genome de novo sequencing reveals unique genes that contributed to the adaptive evolution of the Mikado pheasant
Cited by: 9
Author(s): Chien‐Yueh Lee, Ping-Han Hsieh, Li-Mei Chiang, Amrita Chattopadhyay, Kuanyi Li, Yi-Fang Lee, Tzu-Pin Lu, Liang‐Chuan Lai, Eric S. Lin, Hsinyu Lee, Shih‐Torng Ding, Mong‐Hsun Tsai, Chien‐Yu Chen, Eric Y. Chuang
Software Mentions: 3
Published: over 6 years ago

10.1093/gbe/evaa153

The Identification and Evolutionary Trends of the Solute Carrier Superfamily in Arthropods
Cited by: 9
Author(s): Shane Denecke, Olympia Driva, Hằng Ngọc Bảo Lương, Panagiotis Ioannidis, Marc Linka, Ralf Nauen, Sven Geibel, John Vontas
Software Mentions: 3
Published: over 4 years ago

10.1093/molbev/msaa303

Origins and Long-Term Patterns of Copy-Number Variation in Rhesus Macaques
Cited by: 10
Author(s): Gregg W.C. Thomas, Richard J. Wang, Jelena Nguyen, R. Alan Harris, Muthuswamy Raveendran, Jeffrey Rogers, Matthew W. Hahn
Software Mentions: 3
Published: about 4 years ago

10.1093/gigascience/gix028

Hybrid de novo genome assembly of the Chinese herbal fleabane Erigeron breviscapus
Cited by: 18
Author(s): Jing Yang, Guanghui Zhang, Jing Zhang, Hui Liu, Wei Chen, Xiao Wang, Yahe Li, Yang Dong, Shengchao Yang
Software Mentions: 3
Published: over 7 years ago

10.1093/gigascience/giy120

Chromosomal-level assembly of yellow catfish genome using third-generation DNA sequencing and Hi-C analysis
Cited by: 59
Author(s): Gaorui Gong, Dan Cheng, Shijun Xiao, Wenjie Guo, Peipei Huang, Yang Xiong, Junjie Wu, Yan He, Jicheng Zhang, Xiaohui Li, Nansheng Chen, Jian‐Fang Gui, Jie Mei
Software Mentions: 3
Published: over 6 years ago

10.1093/molbev/msab152

A Chromosome-Level Assembly of Blunt Snout Bream (<i>Megalobrama amblycephala</i>) Genome Reveals an Expansion of Olfactory Receptor Genes in Freshwater Fish
Cited by: 29
Author(s): Han Liu, Chunhai Chen, Mao-Lin Lv, Ning Liu, Yafei Hu, Hailin Zhang, Erik D Enbody, Zexia Gao, Leif C. Andersson, Weimin Wang
Software Mentions: 3
Published: over 3 years ago

10.1534/g3.120.401071

<i>De Novo</i> Genome Assembly of the Meadow Brown Butterfly, <i>Maniola jurtina</i>
Cited by: 4
Author(s): Kumar Saurabh Singh, David J. Hosken, Nina Wedell, Richard H. ffrench‐Constant, Chris Bass, Simon W. Baxter, Konrad Paszkiewicz, Manmohan D. Sharma
Software Mentions: 3
Published: over 4 years ago

10.1038/s42003-021-01770-6

Sociality sculpts similar patterns of molecular evolution in two independently evolved lineages of eusocial bees
Cited by: 16
Author(s): Wyatt A. Shell, Michael Steffen, Hannah K. Pare, Arun S. Seetharam, Andrew J. Severin, Amy L. Toth, Sandra M. Rehan
Software Mentions: 3
Published: almost 4 years ago

10.1038/s42003-018-0089-4

De novo genome assembly of Oryza granulata reveals rapid genome expansion and adaptive evolution
Cited by: 19
Author(s): Zhigang Wu, Dongming Fang, Rui Yang, Fei Gao, Xingyu An, Xiaoxuan Zhuo, Yafei Li, Chuandeng Yi, Tao Zhang, Chengzhi Liang, Peng Cui, Zhukuan Cheng, Qiong Luo
Software Mentions: 3
Published: over 6 years ago

10.1038/s42003-020-1060-8

The genome of pest Rhynchophorus ferrugineus reveals gene families important at the plant-beetle interface
Cited by: 36
Author(s): Khaled M. Hazzouri, Naganeeswaran Sudalaimuthuasari, Biduth Kundu, David R. Nelson, Mohammad Ali Al-Deeb, Alain Le Mansour, J. Spencer Johnston, Claude Desplan, Khaled M. A. Amiri
Software Mentions: 3
Published: over 4 years ago

10.1186/s13068-018-1198-5

Integrative visual omics of the white-rot fungus Polyporus brumalis exposes the biotechnological potential of its oxidative enzymes for delignifying raw plant biomass
Cited by: 31
Author(s): Shingo Miyauchi, Anaïs Rancon, Élodie Drula, Hayat Hage, Delphine Chaduli, Anne Favel, Sacha Grisel, Bernard Henrissat, Isabelle Herpoël-Gimbert, Francisco J. Ruíz-Dueñas, Didier Chevret, Matthieu Hainaut, Jinfeng Lin, Mei Wang, Jasmyn Pangilinan, Anna Lipzen, Laurence Lesage‐Meessen, David Navarro, Robert Riley, Igor V. Grigoriev, Simeng Zhou, Sana Raouche, Marie‐Noëlle Rosso
Software Mentions: 3
Published: over 6 years ago

10.1128/AEM.00815-20

Endosymbionts of Metazoans Dwelling in the PACManus Hydrothermal Vent: Diversity and Potential Adaptive Features Revealed by Genome Analysis
Cited by: 4
Author(s): Leilei Li, Minxiao Wang, Lifeng Li, Zheng Du, Yan Sun, Xiaocheng Wang, Xin Zhang, Chaolun Li
Software Mentions: 3
Published: about 4 years ago

10.3389/fmicb.2018.00276

Genome-Wide Analysis of Corynespora cassiicola Leaf Fall Disease Putative Effectors
Cited by: 52
Author(s): David Lopez, Sébastien Ribeiro, Philippe Label, Boris Fumanal, Jean-Stéphane Venisse, Annegret Kohler, Ricardo Ribeiro de Oliveira, Kurt LaButti, Anna Lipzen, Kathleen Lail, Diane Bauer, Robin A. Ohm, Kerrie Barry, Joseph W. Spatafora, Igor V. Grigoriev, Francis Martin, Valérie Pujade-Renaud
Software Mentions: 3
Published: almost 7 years ago

10.1093/gbe/evu291

Genomics of Ecological Adaptation in Cactophilic Drosophila
Cited by: 47
Author(s): Yolanda Guillén, Núria Rius, Alejandra Delprat, Anna Williford, Francesc Muyas, Marta Puig, Sònia Casillas, Miquel Ràmia, Raquel Egea, Bárbara Negre, Gisela Mir, Jordi Camps, Valentí Moncunill, Francisco J. Ruíz-Ruano, J. Cabrero, Leonardo Gomes de Lima, Guilherme Borges Dias, Jerônimo C. Ruiz, Aurélie Kapusta, Jordi García-Más, Marta Gut, David Torrents, Juan Pedro M. Camacho, Gustavo C. S. Kuhn, Cédric Feschotte, Andrew G. Clark, Esther Betrán, Antonio Barbadilla, Alfredo Ruíz
Software Mentions: 3
Published: almost 10 years ago

10.1038/s41438-020-00449-z

A chromosome-level reference genome of non-heading Chinese cabbage [Brassica campestris (syn. Brassica rapa) ssp. chinensis]
Cited by: 41
Author(s): Ying Li, Gao-Feng Liu, Liming Ma, Tongkun Liu, Changwei Zhang, Dong Xiao, Hongkun Zheng, Fei Chen, Xilin Hou
Software Mentions: 3
Published: about 4 years ago

10.1186/s12864-018-5253-1

Alignment-free genome comparison enables accurate geographic sourcing of white oak DNA
Cited by: 4
Author(s): Kujin Tang, Jie Ren, Richard Cronn, David L. Erickson, Brook G. Milligan, Meaghan Parker-Forney, John L. Spouge, Fengzhu Sun
Software Mentions: 2
Published: about 6 years ago

10.1186/s12870-021-02858-1

The ‘Tommy Atkins’ mango genome reveals candidate genes for fruit quality
Cited by: 25
Author(s): I. S. E. Bally, Aureliano Bombarely, Alan H. Chambers, Yuval Cohen, Natalie Dillon, David J. Innes, María A. Islas-Osuna, David N. Kuhn, Lukas A. Mueller, Ron Ophir, Aditi Rambani, Amir Sherman, Haidong Yan
Software Mentions: 2
Published: almost 4 years ago

10.1186/s12864-019-5818-7

Genome sequencing provides insights into the evolution and antioxidant activity of Chinese bayberry
Cited by: 21
Author(s): Haiyan Ren, Haiyan Yu, Shuwen Zhang, Liang SenMiao, Xiaodong Zheng, Shujian Zhang, Yulin Pu, Hongkun Zheng, Xin Qi
Software Mentions: 2
Published: over 5 years ago

10.1186/s12864-017-4118-3

Genome sequence of the ectophytic fungus Ramichloridium luteum reveals unique evolutionary adaptations to plant surface niche
Cited by: 12
Author(s): Bo Wang, Xiaofei Liang, Mark L. Gleason, Rong Zhang
Software Mentions: 2
Published: over 7 years ago

10.1186/s12915-021-01033-0

The genome of a wild Medicago species provides insights into the tolerant mechanisms of legume forage to environmental stress
Cited by: 29
Author(s): Tianzuo Wang, Lifei Ren, Caihong Li, Di Zhang, Xiuxiu Zhang, Gang Zhou, Gao Da, Rujin Chen, Yuhui Chen, Zhaolan Wang, Fengling Shi, Andrew Farmer, Yansu Li, Min Zhou, Nevin D. Young, Wenhao Zhang
Software Mentions: 2
Published: over 3 years ago

10.1186/s13059-019-1704-5

Genomic signatures accompanying the dietary shift to phytophagy in polyphagan beetles
Cited by: 24
Author(s): Mathieu Seppey, Panagiotis Ioannidis, Brent C. Emerson, Camille Pitteloud, Marc Robinson‐Rechavi, Julien Roux, Hermes E. Escalona, Duane D. McKenna, Bernhard Misof, Seunggwan Shin, Xin Zhou, Robert M. Waterhouse, Nadir Alvarez
Software Mentions: 2
Published: over 5 years ago