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  1. Most eukaryotic genes produce different transcripts of multiple isoforms by inclusion or exclusion of particular exons. The isoforms of a gene often play diverse functional roles, and thus it is necessary to a...

    Authors: Wei Zhang, Raphael Petegrosso, Jae-Woong Chang, Jiao Sun, Jeongsik Yong, Jeremy Chien and Rui Kuang

    Citation: BMC Genomics 2020 21:272

    Content type: Research Article

    Published on:

  2. Gill health is one of the main concerns for Atlantic salmon aquaculture, and Amoebic Gill Disease (AGD), attributable to infection by the amoeba Neoparamoeba perurans, is a frequent cause of morbidity. In the abs...

    Authors: Diego Robledo, Alastair Hamilton, Alejandro P. Gutiérrez, James E. Bron and Ross D. Houston

    Citation: BMC Genomics 2020 21:271

    Content type: Research article

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  3. The C:G > T:A substitution at the CpG dinucleotide contexts is the most frequent substitution type in genome evolution. The mutational process is obviously ongoing in the human germline; however, its impact on...

    Authors: Jeonghwan Youk, Yohan An, Seongyeol Park, June-Koo Lee and Young Seok Ju

    Citation: BMC Genomics 2020 21:270

    Content type: Research article

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  4. The nucleoli, including their proteomes, of higher eukaryotes have been extensively studied, while few studies about the nucleoli of the lower eukaryotes – protists were reported. Giardia lamblia, a protist with ...

    Authors: Jin-Mei Feng, Chun-Lin Yang, Hai-Feng Tian, Jiang-Xin Wang and Jian-Fan Wen

    Citation: BMC Genomics 2020 21:269

    Content type: Research article

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  5. Polydactyly is one of the most common congenital limb dysplasia in many animal species. Although preaxial polydactyly (PPD) has been comprehensively studied in humans as a common abnormality, the genetic varia...

    Authors: Cheng Ma, Saber Khederzadeh, Adeniyi C. Adeola, Xu-Man Han, Hai-Bing Xie and Ya-Ping Zhang

    Citation: BMC Genomics 2020 21:268

    Content type: Research article

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  6. Fertility is an important economic trait in the production of meat goat, and follicular development plays an important role in fertility. Although many mRNAs and microRNAs (miRNAs) have been found to play crit...

    Authors: Xian Zou, Tingting Lu, Zhifeng Zhao, Guangbin Liu, Zhiquan Lian, Yongqing Guo, Baoli Sun, Dewu Liu and Yaokun Li

    Citation: BMC Genomics 2020 21:267

    Content type: Research article

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  7. Marmots are large Holarctic rodents with unique biological features, making them potential animal models in various research fields. Due to the rapid accumulation of the genetic data in marmots, a highly integ...

    Authors: Baoning Liu, Liang Bai, Qingqing Yu, Fang Hu, Jing Wu, Sihai Zhao, Rong Wang, Weirong Wang, Yuanqing Tao, Jianglin Fan and Enqi Liu

    Citation: BMC Genomics 2020 21:266

    Content type: Database

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  8. Marine endophytic fungi (MEF) are good sources of structurally unique and biologically active secondary metabolites. Due to the increase in antimicrobial resistance, the secondary metabolites from MEF ought to...

    Authors: Ethel Juliet Blessie, Wasco Wruck, Benaiah Annertey Abbey, Audrey Ncube, Nina Graffmann, Vincent Amarh, Patrick Kobina Arthur and James Adjaye

    Citation: BMC Genomics 2020 21:265

    Content type: Research article

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  9. Brassica is a very important genus of Brassicaceae, including many important oils, vegetables, forage crops, and ornamental horticultural plants. TLP family genes play important regulatory roles in the growth and...

    Authors: Tong Wang, Jingjing Hu, Xiao Ma, Chunjin Li, Qihang Yang, Shuyan Feng, Miaomiao Li, Nan Li and Xiaoming Song

    Citation: BMC Genomics 2020 21:264

    Content type: Research article

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  10. Emergence of antibiotic resistance is a global public health concern. The relationships between antibiotic use, the gut community composition, normal physiology and metabolism, and individual and public health...

    Authors: Lei Xu, Anil Surathu, Isaac Raplee, Ashok Chockalingam, Sharron Stewart, Lacey Walker, Leonard Sacks, Vikram Patel, Zhihua Li and Rodney Rouse

    Citation: BMC Genomics 2020 21:263

    Content type: Research article

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  11. The non-climacteric ‘Yellow’ melon (Cucumis melo, inodorus group) is an economically important crop and its quality is mainly determined by the sugar content. Thus, knowledge of sugar metabolism and its related p...

    Authors: Michelle Orane Schemberger, Marília Aparecida Stroka, Letícia Reis, Kamila Karoline de Souza Los, Gillize Aparecida Telles de Araujo, Michelle Zibetti Tadra Sfeir, Carolina Weigert Galvão, Rafael Mazer Etto, Amanda Regina Godoy Baptistão and Ricardo Antonio Ayub

    Citation: BMC Genomics 2020 21:262

    Content type: Research article

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  12. The nucleotide second messengers, i.e., guanosine tetraphosphate and pentaphosphate [collectively referred to as (p) ppGpp], trigger the stringent response under nutrient starvation conditions and play an esse...

    Authors: Ho-wen Yang, Menghao Yu, Jae Hoon Lee, Tiyakhon Chatnaparat and Youfu Zhao

    Citation: BMC Genomics 2020 21:261

    Content type: Research article

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  13. Upstream open reading frames (uORFs) in the 5′-untranslated regions (5′-UTRs) of certain eukaryotic mRNAs encode evolutionarily conserved functional peptides, such as cis-acting regulatory peptides that contro...

    Authors: Hiro Takahashi, Noriya Hayashi, Yuta Hiragori, Shun Sasaki, Taichiro Motomura, Yui Yamashita, Satoshi Naito, Anna Takahashi, Kazuyuki Fuse, Kenji Satou, Toshinori Endo, Shoko Kojima and Hitoshi Onouchi

    Citation: BMC Genomics 2020 21:260

    Content type: Research article

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  14. The olive fruit fly, Bactrocera oleae, is the most important pest in the olive fruit agribusiness industry. This is because female flies lay their eggs in the unripe fruits and upon hatching the larvae feed on th...

    Authors: Anthony Bayega, Haig Djambazian, Konstantina T. Tsoumani, Maria-Eleni Gregoriou, Efthimia Sagri, Eleni Drosopoulou, Penelope Mavragani-Tsipidou, Kristina Giorda, George Tsiamis, Kostas Bourtzis, Spyridon Oikonomopoulos, Ken Dewar, Deanna M. Church, Alexie Papanicolaou, Kostas D. Mathiopoulos and Jiannis Ragoussis

    Citation: BMC Genomics 2020 21:259

    Content type: Research article

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  15. Ribosomally synthesized and post-translationally modified peptides (RiPPs) are a highly diverse group of secondary metabolites (SM) of bacterial and fungal origin. While RiPPs have been intensively studied in ...

    Authors: Gabriel A. Vignolle, Robert L. Mach, Astrid R. Mach-Aigner and Christian Derntl

    Citation: BMC Genomics 2020 21:258

    Content type: Methodology article

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  16. The Brazilian endemic clone Pseudomonas aeruginosa ST277 carries important antibiotic resistance determinants, highlighting the gene coding for SPM-1 carbapenemase. However, the resistance and persistence of this...

    Authors: Melise Chaves Silveira, Cláudio Marcos Rocha-de-Souza, Rodolpho Mattos Albano, Ivson Cassiano de Oliveira Santos and Ana Paula D’Alincourt Carvalho-Assef

    Citation: BMC Genomics 2020 21:255

    Content type: Research article

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  17. The mammary gland is a unique organ for milk synthesis, secretion and storage, and it undergoes cyclical processes of development, differentiation, lactation and degeneration. At different developmental period...

    Authors: Zhibin Ji, Tianle Chao, Zhaohua Liu, Lei Hou, Jin Wang, Aili Wang, Jie Zhou, Rong Xuan, Guizhi Wang and Jianmin Wang

    Citation: BMC Genomics 2020 21:254

    Content type: Research article

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  18. The process of alternative splicing provides a unique mechanism by which eukaryotes are able to produce numerous protein products from the same gene. Heightened variability in the proteome has been thought to ...

    Authors: Andrew S. Lang, Suzanne H. Austin, Rayna M. Harris, Rebecca M. Calisi and Matthew D. MacManes

    Citation: BMC Genomics 2020 21:251

    Content type: Research article

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  19. The Mi-1 gene was the first identified and cloned gene that provides resistance to root-knot nematodes (RKNs) in cultivated tomato. However, owing to its temperature sensitivity, this gene does not meet the need ...

    Authors: Chong Du, Jingbin Jiang, He Zhang, Tingting Zhao, Huanhuan Yang, Dongye Zhang, Zhentong Zhao, Xiangyang Xu and Jingfu Li

    Citation: BMC Genomics 2020 21:250

    Content type: Research article

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  20. The Fusarium oxysporum species complex (FOSC) is a ubiquitous group of fungal species readily isolated from agroecosystem and natural ecosystem soils which includes important plant and human pathogens. Genetic re...

    Authors: Saidi R. Achari, Jatinder Kaur, Quang Dinh, Ross Mann, Tim Sawbridge, Brett A. Summerell and Jacqueline Edwards

    Citation: BMC Genomics 2020 21:248

    Content type: Research article

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  21. The stripe rust pathogen, Puccinia striiformis f. sp. tritici (Pst), threats world wheat production. Resistance to Pst is often overcome by pathogen virulence changes, but the mechanisms of variation are not clea...

    Authors: Yuxiang Li, Chongjing Xia, Meinan Wang, Chuntao Yin and Xianming Chen

    Citation: BMC Genomics 2020 21:247

    Content type: Research article

    Published on:

  22. Triticum and Aegilops diploid species have morphological and genetic diversity and are crucial genetic resources for wheat breeding. According to the chromosomal pairing-affinity of these species, their genome no...

    Authors: Sayaka Tanaka, Kentaro Yoshida, Kazuhiro Sato and Shigeo Takumi

    Citation: BMC Genomics 2020 21:246

    Content type: Research article

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  23. Sheath blight (SB), caused by Rhizoctonia solani, is a common rice disease worldwide. Currently, rice cultivars with robust resistance to R. solani are still lacking. To provide theoretic basis for molecular bree...

    Authors: Wei Shi, Shao-Lu Zhao, Kai Liu, Yi-Biao Sun, Zheng-Bin Ni, Gui-Yun Zhang, Hong-Sheng Tang, Jing-Wen Zhu, Bai-Jie Wan, Hong-Qin Sun, Jin-Ying Dai, Ming-Fa Sun, Guo-Hong Yan, Ai-Min Wang and Guo-Yong Zhu

    Citation: BMC Genomics 2020 21:245

    Content type: Research article

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  24. Conogethes pinicolalis (Lepidoptera: Crambidae), is similar to Conogethes punctiferalis (yellow peach moth) and its host plant is gymnosperms, especially for masson pine. So far, less literature was reported on t...

    Authors: Dapeng Jing, Tiantao Zhang, Shuxiong Bai, Kanglai He, Sivaprasath Prabu, Junbo Luan and Zhenying Wang

    Citation: BMC Genomics 2020 21:244

    Content type: Research article

    Published on:

  25. The fall webworm Hyphantria cunea is an invasive and polyphagous defoliator pest that feeds on nearly any type of deciduous tree worldwide. The silk web of H. cunea aids its aggregating behavior, provides thermal...

    Authors: Qi Chen, Hanbo Zhao, Ming Wen, Jiaxin Li, Haifeng Zhou, Jiatong Wang, Yuxin Zhou, Yulin Liu, Lixin Du, Hui Kang, Jian Zhang, Rui Cao, Xiaoming Xu, Jing-Jiang Zhou, Bingzhong Ren and Yinliang Wang

    Citation: BMC Genomics 2020 21:242

    Content type: Research article

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  26. Mice of the genus Apodemus are one the most common mammals in the Palaearctic region. Despite their broad range and long history of ecological observations, there are no whole-genome data available for Apodemus, ...

    Authors: Maria Luisa Martin Cerezo, Marek Kucka, Karol Zub, Yingguang Frank Chan and Jarosław Bryk

    Citation: BMC Genomics 2020 21:241

    Content type: Research Article

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  27. Barnacles are specialized marine organisms that differ from other crustaceans in possession of a calcareous shell, which is attached to submerged surfaces. Barnacles have a wide distribution, mostly in the int...

    Authors: Zhibin Gan, Jianbo Yuan, Xinming Liu, Dong Dong, Fuhua Li and Xinzheng Li

    Citation: BMC Genomics 2020 21:240

    Content type: Research article

    Published on:

  28. Identifying nuclease-induced double-stranded breaks in DNA on a genome-wide scale is critical for assessing the safety and efficacy of genome editing therapies. We previously demonstrated that after administer...

    Authors: Camilo Breton, Peter M. Clark, Lili Wang, Jenny A. Greig and James M. Wilson

    Citation: BMC Genomics 2020 21:239

    Content type: Methodology article

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  29. Glyphosate has become the most widely used herbicide in the world. Therefore, the development of new varieties of glyphosate-tolerant crops is a research focus of seed companies and researchers. The glyphosate...

    Authors: Rongrong Zhai, Shenghai Ye, Guofu Zhu, Yanting Lu, Jing Ye, Faming Yu, Qiren Chu and Xiaoming Zhang

    Citation: BMC Genomics 2020 21:238

    Content type: Research article

    Published on:

  30. Plant genomes are rich in repetitive sequences, and transposable elements (TEs) are the most accumulated of them. This mobile fraction can be distinguished as Class I (retrotransposons) and Class II (transposo...

    Authors: Rafael de Assis, Viviane Yumi Baba, Leonardo Adabo Cintra, Leandro Simões Azeredo Gonçalves, Rosana Rodrigues and André Luís Laforga Vanzela

    Citation: BMC Genomics 2020 21:237

    Content type: Research article

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  31. Iron (Fe) deficiency is a common problem in citrus production. As the second largest superfamily of transcription factors (TFs), the basic/helix-loop-helix (bHLH) proteins have been shown to participate in the...

    Authors: Xiao-Yong Zhang, Jie-Ya Qiu, Qiu-Ling Hui, Yuan-Yuan Xu, Yi-Zhong He, Liang-Zhi Peng and Xing-Zheng Fu

    Citation: BMC Genomics 2020 21:233

    Content type: Research article

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  32. Plant miRNAs play crucial roles in responses to drought and developmental processes. It is essential to understand the association of miRNAs with drought-tolerance (DT), as well as their impacts on growth, dev...

    Authors: Hui Xia, Shunwu Yu, Deyan Kong, Jie Xiong, Xiaosong Ma, Liang Chen and Lijun Luo

    Citation: BMC Genomics 2020 21:232

    Content type: Research article

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  33. Plants have developed various sophisticated mechanisms to cope up with climate extremes and different stress conditions, especially by involving specific transcription factors (TFs). The members of the WRKY TF...

    Authors: Jeky Chanwala, Suresh Satpati, Anshuman Dixit, Ajay Parida, Mrunmay Kumar Giri and Nrisingha Dey

    Citation: BMC Genomics 2020 21:231

    Content type: Research article

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  34. DNA sequencing is at the core of many molecular biology laboratories. Despite its long history, there is a lack of user-friendly Sanger sequencing data analysis tools that can be run interactively as a web app...

    Authors: Tobias Rausch, Markus Hsi-Yang Fritz, Andreas Untergasser and Vladimir Benes

    Citation: BMC Genomics 2020 21:230

    Content type: Software

    Published on:

  35. Gene expression regulators identified in transcriptome profiling experiments may serve as ideal targets for genetic manipulations in farm animals.

    Authors: Tinghua Huang, Min Yang, Kaihui Dong, Mingjiang Xu, Jinhui Liu, Zhi Chen, Shijia Zhu, Wang Chen, Jun Yin, Kai Jin, Yu Deng, Zhou Guan, Xiali Huang, Jun Yang, Rongxun Han and Min Yao

    Citation: BMC Genomics 2020 21:229

    Content type: Research article

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  36. Quantitative red blood cell (RBC) traits are highly polygenic clinically relevant traits, with approximately 500 reported GWAS loci. The majority of RBC trait GWAS have been performed in European- or East Asia...

    Authors: Chani J. Hodonsky, Antoine R. Baldassari, Stephanie A. Bien, Laura M. Raffield, Heather M. Highland, Colleen M. Sitlani, Genevieve L. Wojcik, Ran Tao, Marielisa Graff, Weihong Tang, Bharat Thyagarajan, Steve Buyske, Myriam Fornage, Lucia A. Hindorff, Yun Li, Danyu Lin…

    Citation: BMC Genomics 2020 21:228

    Content type: Research article

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  37. Halyomorpha halys (Stål), the brown marmorated stink bug, is a highly invasive insect species due in part to its exceptionally high levels of polyphagy. This species is also a nuisance due to overwintering in hum...

    Authors: Michael E. Sparks, Raman Bansal, Joshua B. Benoit, Michael B. Blackburn, Hsu Chao, Mengyao Chen, Sammy Cheng, Christopher Childers, Huyen Dinh, Harsha Vardhan Doddapaneni, Shannon Dugan, Elena N. Elpidina, David W. Farrow, Markus Friedrich, Richard A. Gibbs, Brantley Hall…

    Citation: BMC Genomics 2020 21:227

    Content type: Research article

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  38. Cope’s gray treefrog, Dryophytes chrysoscelis, withstands the physiological challenges of corporeal freezing, partly by accumulating cryoprotective compounds of hepatic origin, including glycerol, urea, and gluco...

    Authors: M. Clara F. do Amaral, James Frisbie, Raphael J. Crum, David L. Goldstein and Carissa M. Krane

    Citation: BMC Genomics 2020 21:226

    Content type: Research article

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  39. Hi-C is a molecular biology technique to understand the genome spatial structure. However, data obtained from Hi-C experiments is biased. Therefore, several methods have been developed to model Hi-C data and i...

    Authors: Saman Khakmardan, Mohsen Rezvani, Ali Akbar Pouyan, Mansoor Fateh and Hamid Alinejad-Rokny

    Citation: BMC Genomics 2020 21:225

    Content type: Software

    Published on:

  40. The circadian rhythms regulate physiological functions and metabolism. Circadian Time (CT) is a unit to quantify the rhythm of endogenous circadian clock, independent of light influence. To understand the gene...

    Authors: Huan Li, Shiyao Zhang, Wenxiang Zhang, Siyu Chen, Anjara Rabearivony, Yujie Shi, Jie Liu, Christopher J. Corton and Chang Liu

    Citation: BMC Genomics 2020 21:224

    Content type: Research article

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  41. Based on an initial collecting of database sequences from the gap junction protein gene family (also called connexin genes) in a few teleosts, the naming of these sequences appeared variable. The reasons could...

    Authors: Svein-Ole Mikalsen, Marni Tausen and Sunnvør í Kongsstovu

    Citation: BMC Genomics 2020 21:223

    Content type: Research article

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  42. The creation of arrays of yeast strains each encoding a different protein with constant tags is a powerful method for understanding how genes and their proteins control cell function. As genetic tools become m...

    Authors: Lisa K. Berry, Grace Heredge Thomas and Peter H. Thorpe

    Citation: BMC Genomics 2020 21:221

    Content type: Methodology article

    Published on:

  43. Circular RNA (circRNA) is produced during the splicing of mRNA (in addition to linear splicing) and is part of the gene regulatory network. The temporal expression patterns the different developmental stages w...

    Authors: Yinghui Ling, Qi Zheng, Lu Zhu, Lina Xu, Menghua Sui, Yunhai Zhang, Ya Liu, Fugui Fang, Mingxing Chu, Yuehui Ma and Xiaorong Zhang

    Citation: BMC Genomics 2020 21:220

    Content type: Research article

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  44. Cyanobacteria are of special concern because they proliferate in eutrophic water bodies worldwide and affect water quality. As an ancient photosynthetic microorganism, cyanobacteria can survive in ecologically...

    Authors: Meng Chen, Chun-Yang Xu, Xu Wang, Chong-Yang Ren, Jiao Ding and Li Li

    Citation: BMC Genomics 2020 21:217

    Content type: Research article

    Published on:

  45. All retroviruses, including human immunodeficiency virus (HIV), must integrate a DNA copy of their genomes into the genome of the infected host cell to replicate. Although integrated retroviral DNA, known as a...

    Authors: Daria W. Wells, Shuang Guo, Wei Shao, Michael J. Bale, John M. Coffin, Stephen H. Hughes and Xiaolin Wu

    Citation: BMC Genomics 2020 21:216

    Content type: Methodology article

    Published on:

  46. In recent years, interest in Bacillus velezensis has increased significantly due to its role in many industrial water bioremediation processes. In this study, we isolated and assessed the transcriptome of Bacillu...

    Authors: Guangxin Liu, Sarath Babu Vijayaraman, Yanjun Dong, Xinfeng Li, Binda Tembeng Andongmaa, Lijuan Zhao, Jiagang Tu, Jin He and Li Lin

    Citation: BMC Genomics 2020 21:215

    Content type: Research article

    Published on:

  47. Cupriavidus strain STM 6070 was isolated from nickel-rich soil collected near Koniambo massif, New Caledonia, using the invasive legume trap host Mimosa pudica. STM 6070 is a heavy metal-tolerant strain that is h...

    Authors: Agnieszka Klonowska, Lionel Moulin, Julie Kaye Ardley, Florence Braun, Margaret Mary Gollagher, Jaco Daniel Zandberg, Dora Vasileva Marinova, Marcel Huntemann, T. B. K. Reddy, Neha Jacob Varghese, Tanja Woyke, Natalia Ivanova, Rekha Seshadri, Nikos Kyrpides and Wayne Gerald Reeve

    Citation: BMC Genomics 2020 21:214

    Content type: Research article

    Published on:

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