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  1. Content type: Research article

    Rice plants are sensitive to the agro-climate conditions, being photoperiod one of main factor contributing to their adaptation to the region where they are grown. Dissecting the genetic bases underlying diver...

    Authors: Juan L Reig-Valiente, Luis Marqués, Manuel Talón and Concha Domingo

    Citation: BMC Genomics 2018 19:706

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  2. Content type: Research article

    Listeria monocytogenes is a widespread foodborne pathogen that can cause listeriosis, a potentially fatal infection. L. monocytogenes is subdivided into four phylogenetic lineages, with the highest incidence of l...

    Authors: Cary Pirone-Davies, Yi Chen, Arthur Pightling, Gina Ryan, Yu Wang, Kuan Yao, Maria Hoffmann and Marc W. Allard

    Citation: BMC Genomics 2018 19:708

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  3. Content type: Research article

    Maternal nutrition has been highlighted as one of the main factors affecting intra-uterine environment. The increase in nutritional requirements by beef cows during late gestation can cause nutritional deficie...

    Authors: Leticia P Sanglard, Moysés Nascimento, Philipe Moriel, Jeffrey Sommer, Melissa Ashwell, Matthew H Poore, Márcio de S Duarte and Nick V L Serão

    Citation: BMC Genomics 2018 19:702

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  4. Content type: Methodology

    Database search has been the main approach for proteoform identification by top-down tandem mass spectrometry. However, when the target proteoform that produced the spectrum contains post-translational modific...

    Authors: Runmin Yang and Daming Zhu

    Citation: BMC Genomics 2018 19(Suppl 7):666

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    This article is part of a Supplement: Volume 19 Supplement 7

  5. Content type: Research

    Aligning protein-protein interaction (PPI) networks is very important to discover the functionally conserved sub-structures between different species. In recent years, the global PPI network alignment problem ...

    Authors: Yuanyuan Zhu, Yuezhi Li, Juan Liu, Lu Qin and Jeffrey Xu Yu

    Citation: BMC Genomics 2018 19(Suppl 7):670

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    This article is part of a Supplement: Volume 19 Supplement 7

  7. Content type: Research

    Antimicrobial peptides are a promising alternative for combating pathogens resistant to conventional antibiotics. Computer-assisted peptide discovery strategies are necessary to automatically assess a signific...

    Authors: Jesus A. Beltran, Longendri Aguilera-Mendoza and Carlos A. Brizuela

    Citation: BMC Genomics 2018 19(Suppl 7):672

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    This article is part of a Supplement: Volume 19 Supplement 7

  8. Content type: Research

    MicroRNA regulation is fundamentally responsible for fine-tuning the whole gene network in human and has been implicated in most physiological and pathological conditions. Studying regulatory impact of microRN...

    Authors: Zeynep Hakguder, Jiang Shu, Chunxiao Liao, Kaiyue Pan and Juan Cui

    Citation: BMC Genomics 2018 19(Suppl 7):658

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    This article is part of a Supplement: Volume 19 Supplement 7

  9. Content type: Research article

    Chicken coccidiosis, caused by the infection of Eimeria species, leads to important economic losses to the poultry industry. Vaccination with attenuated live parasites seems to be the best way to control this dis...

    Authors: Dandan Hu, Chaoyue Wang, Si Wang, Xinming Tang, Chunhui Duan, Sixin Zhang, Jinxia Suo, Miner Deng, Yanli Lv, Xun Suo and Xianyong Liu

    Citation: BMC Genomics 2018 19:699

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  10. Content type: Research article

    Life in the ocean will increasingly have to contend with a complex matrix of concurrent shifts in environmental properties that impact their physiology and control their life histories. Rhodoliths are corallin...

    Authors: Giselle S. Cavalcanti, Priya Shukla, Megan Morris, Bárbara Ribeiro, Mariah Foley, Michael P. Doane, Cristiane C. Thompson, Matthew S. Edwards, Elizabeth A. Dinsdale and Fabiano L. Thompson

    Citation: BMC Genomics 2018 19:701

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  11. Content type: Methodology

    In silico investigations on the integration of multiple datasets are in need of higher statistical power methods to unveil secondary findings that were hidden from the initial analyses. We present here a novel me...

    Authors: Rubén Armañanzas

    Citation: BMC Genomics 2018 19(Suppl 7):668

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    This article is part of a Supplement: Volume 19 Supplement 7

  12. Content type: Research article

    The formation of matured and individual sperm involves a series of molecular and spectacular morphological changes of the developing cysts in Drosophila melanogaster testis. Recent advances in RNA Sequencing (RNA...

    Authors: Viktor Vedelek, László Bodai, Gábor Grézal, Bence Kovács, Imre M. Boros, Barbara Laurinyecz and Rita Sinka

    Citation: BMC Genomics 2018 19:697

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  13. Content type: Research article

    Erinnyis ello granulovirus (ErelGV) is a betabaculovirus infecting caterpillars of the sphingid moth E. ello ello (cassava hornworm), an important pest of cassava crops (Manihot esculenta). In this study, the gen...

    Authors: A. F. Brito, F. L. Melo, D. M. P. Ardisson-Araújo, W. Sihler, M. L. Souza and B. M. Ribeiro

    Citation: BMC Genomics 2018 19:698

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  14. Content type: Research

    The protein energy landscape underscores the inherent nature of proteins as dynamic molecules interconverting between structures with varying energies. Reconstructing a protein’s energy landscape holds the key...

    Authors: Wanli Qiao, Nasrin Akhter, Xiaowen Fang, Tatiana Maximova, Erion Plaku and Amarda Shehu

    Citation: BMC Genomics 2018 19(Suppl 7):671

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    This article is part of a Supplement: Volume 19 Supplement 7

  15. Content type: Research

    The ability to predict the interaction of drugs with target proteins is essential to research and development of drug. However, the traditional experimental paradigm is costly, and previous in silico prediction p...

    Authors: Lingwei Xie, Song He, Xinyu Song, Xiaochen Bo and Zhongnan Zhang

    Citation: BMC Genomics 2018 19(Suppl 7):667

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    This article is part of a Supplement: Volume 19 Supplement 7

  16. Content type: Research

    Small interfering RNA (siRNA) can be used to post-transcriptional gene regulation by knocking down targeted genes. In functional genomics, biomedical research and cancer therapeutics, siRNA design is a critica...

    Authors: Ye Han, Fei He, Yongbing Chen, Yuanning Liu and Helong Yu

    Citation: BMC Genomics 2018 19(Suppl 7):669

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    This article is part of a Supplement: Volume 19 Supplement 7

  17. Content type: Research article

    Divergent genetic responses to the same environmental pressures may lead sympatric ecological speciation possible. Such speciation process possibly explains rapid sympatric speciation of island species. Two is...

    Authors: Bing-Hong Huang, Yuan-Chien Lin, Chih-Wei Huang, Hsin-Pei Lu, Min-Xin Luo and Pei-Chun Liao

    Citation: BMC Genomics 2018 19:692

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  18. Content type: Research article

    Natural antibodies (NAb) are an important component of the innate immune system, and fight infections as a part of the first line defence. NAb are poly-reactive and can respond non-specifically to antigens. Th...

    Authors: Britt de Klerk, Mehdi Emam, Kathleen A. Thompson-Crispi, Mehdi Sargolzaei, Johan J. van der Poel and Bonnie A. Mallard

    Citation: BMC Genomics 2018 19:694

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  19. Content type: Research article

    Although hatching is perhaps the most abrupt and profound metabolic challenge that a chicken must undergo; there have been no attempts to functionally map the metabolic pathways induced in liver during the emb...

    Authors: Larry A. Cogburn, Nares Trakooljul, Chuming Chen, Hongzhan Huang, Cathy H. Wu, Wilfrid Carré, Xiaofei Wang and Harold B. White III

    Citation: BMC Genomics 2018 19:695

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  20. Content type: Research article

    Cell type-specific ribosome-pulldown has become an increasingly popular method for analysis of gene expression. It allows for expression analysis from intact tissues and monitoring of protein synthesis in vivo...

    Authors: Yang Song, Beatrice Milon, Sandra Ott, Xuechu Zhao, Lisa Sadzewicz, Amol Shetty, Erich T. Boger, Luke J. Tallon, Robert J. Morell, Anup Mahurkar and Ronna Hertzano

    Citation: BMC Genomics 2018 19:696

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  21. Content type: Research article

    The oriental fruit fly, Bactrocera dorsalis (Hendel) has been considered to be one of the most important agricultural pest around the world. As a holometabolous insect, larvae must go through a metamorphosis proc...

    Authors: Er-Hu Chen, Qiu-Li Hou, Wei Dou, Dan-Dan Wei, Yong Yue, Rui-Lin Yang, Shuai-Feng Yu, Kristof De Schutter, Guy Smagghe and Jin-Jun Wang

    Citation: BMC Genomics 2018 19:693

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  22. Content type: Research article

    Domestication has led to substantial phenotypic and genetic variation in domestic animals. In pigs, the size of so called minipigs differs by one order of magnitude compared to breeds of large body size. We us...

    Authors: C. Reimer, C.-J. Rubin, A. R. Sharifi, N.-T. Ha, S. Weigend, K.-H. Waldmann, O. Distl, S. D. Pant, M. Fredholm, M. Schlather and H. Simianer

    Citation: BMC Genomics 2018 19:687

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  23. Content type: Research article

    Sogatella furcifera is a migratory pest that damages rice plants and causes severe economic losses. Due to its ability to annually migrate long distances, S. furcifera has emerged as a major pest of rice in sever...

    Authors: Zhen Zeng, Yating Fu, Dongyang Guo, Yuxuan Wu, Olugbenga Emmanuel Ajayi and Qingfa Wu

    Citation: BMC Genomics 2018 19:688

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  24. Content type: Research article

    The scalloped spiny lobster (Panulirus homarus) is a popular seafood commodity worldwide and an important export item from Oman. Annual catches in commercial fisheries are in serious decline, which has resulted i...

    Authors: Rufaida Dhuhai Al-Breiki, Shannon R. Kjeldsen, Hasifa Afzal, Manal Saif Al Hinai, Kyall R. Zenger, Dean R. Jerry, Mohammed Ali Al-Abri and Madjid Delghandi

    Citation: BMC Genomics 2018 19:690

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  25. Content type: Research article

    JWB phytoplasma is a kind of insect-transmitted and uncultivable bacterial plant pathogen causeing a destructive Jujube disease. To date, no genome information about JWB phytoplasma has been published, which h...

    Authors: Jie Wang, Laiqing Song, Qiqing Jiao, Shuke Yang, Rui Gao, Xingbo Lu and Guangfang Zhou

    Citation: BMC Genomics 2018 19:689

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  27. Content type: Correction

    Following the publication of this article [1], the authors informed us of the following error.

    Authors: E. A. S. Buiate, K. V. Xavier, N. Moore, M. F. Torres, M. L. Farman, C. L. Schardl and L. J. Vaillancourt

    Citation: BMC Genomics 2018 19:686

    Published on:

    The original article was published in BMC Genomics 2017 18:67

  28. Content type: Research article

    In the present study, we sequenced the complete genomes of three novel bacteriophages v_B-Bak1, v_B-Bak6, v_B-Bak10 previously isolated from historical anthrax burial sites in the South Caucasus country of Geo...

    Authors: J. Farlow, D. Bolkvadze, L. Leshkasheli, I. Kusradze, A. Kotorashvili, N. Kotaria, N. Balarjishvili, L. Kvachadze, M. Nikolich and M. Kutateladze

    Citation: BMC Genomics 2018 19:685

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    The Correction to this article has been published in BMC Genomics 2018 19:713

  29. Content type: Research article

    Numerous long non-coding RNAs (lncRNAs) have been identified and their roles in gene regulation in humans, mice, and other model organisms studied; however, far less research has been focused on lncRNAs in far...

    Authors: Colin Kern, Ying Wang, James Chitwood, Ian Korf, Mary Delany, Hans Cheng, Juan F. Medrano, Alison L. Van Eenennaam, Catherine Ernst, Pablo Ross and Huaijun Zhou

    Citation: BMC Genomics 2018 19:684

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  30. Content type: Research article

    Human perception of bitter substances is partially genetically determined. Previously we discovered a single nucleotide polymorphism (SNP) within the cluster of bitter taste receptor genes on chromosome 12 tha...

    Authors: Liang-Dar Hwang, Puya Gharahkhani, Paul A. S. Breslin, Scott D. Gordon, Gu Zhu, Nicholas G. Martin, Danielle R. Reed and Margaret J. Wright

    Citation: BMC Genomics 2018 19:678

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  31. Content type: Research article

    Sorghum bicolor is the fifth most commonly grown cereal worldwide and is remarkable for its drought and abiotic stress tolerance. For these reasons and the large size of biomass varieties, it has been proposed as...

    Authors: Jennifer E. Spindel, Jeffery Dahlberg, Matthew Colgan, Joy Hollingsworth, Julie Sievert, Scott H. Staggenborg, Robert Hutmacher, Christer Jansson and John P. Vogel

    Citation: BMC Genomics 2018 19:679

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  32. Content type: Research article

    Environmental changes of biotic or abiotic nature during critical periods of early development may exert a profound influence on physiological functions later in life. This process, named developmental program...

    Authors: Vincent Veron, Lucie Marandel, Jingwei Liu, Emilio J. Vélez, Olivier Lepais, Stéphane Panserat, Sandrine Skiba and Iban Seiliez

    Citation: BMC Genomics 2018 19:677

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  33. Content type: Research article

    The molecular basis of compensatory growth in monogastric animals has not yet been fully explored. Herewith, in this study we aim to determine changes in the pig skeletal muscle transcriptome profile during co...

    Authors: Maria Ballester, Marcel Amills, Olga González-Rodríguez, Tainã F. Cardoso, Mariam Pascual, Rayner González-Prendes, Núria Panella-Riera, Isabel Díaz, Joan Tibau and Raquel Quintanilla

    Citation: BMC Genomics 2018 19:682

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  34. Content type: Research article

    Genetically selected modern broiler chickens have acquired outstanding production efficiency through rapid growth and improved feed efficiency compared to unselected chicken breeds. Recently, we analyzed the t...

    Authors: Bhuwan Khatri, Dongwon Seo, Stephanie Shouse, Jeong Hoon Pan, Nicholas J. Hudson, Jae Kyeom Kim, Walter Bottje and Byungwhi C. Kong

    Citation: BMC Genomics 2018 19:683

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  35. Content type: Research article

    The current literature on single cell genomic analyses on the DNA level is conflicting regarding requirements for cell quality, amplification success rates, allelic dropouts and resolution, lacking a systemati...

    Authors: Anita T. Simonsen, Marcus C. Hansen, Eigil Kjeldsen, Peter L. Møller, Johnny J. Hindkjær, Peter Hokland and Anni Aggerholm

    Citation: BMC Genomics 2018 19:681

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  36. Content type: Research article

    The aim of this study was to assess genome-wide autozygosity in a Nellore cattle population and to characterize ROH patterns and autozygosity islands that may have occurred due to selection within its lineages...

    Authors: Elisa Peripolli, Julia Metzger, Marcos Vinícius Antunes de Lemos, Nedenia Bonvino Stafuzza, Sabrina Kluska, Bianca Ferreira Olivieri, Fabieli Louise Braga Feitosa, Mariana Piatto Berton, Fernando Brito Lopes, Danísio Prado Munari, Raysildo Barbosa Lôbo, Cláudio de Ulhoa Magnabosco, Fernando Di Croce, Jason Osterstock, Sue Denise, Angélica Simone Cravo Pereira…

    Citation: BMC Genomics 2018 19:680

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  37. Content type: Research article

    Members of the transient receptor potential (TRP) superfamily are proteins that are critical for insects to detect changes in environmental stimuli and also play key roles in their sensory physiology. Moreover...

    Authors: Hong-ai Su, Xue Bai, Tian Zeng, Yong-yue Lu and Yi-xiang Qi

    Citation: BMC Genomics 2018 19:674

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  38. Content type: Research article

    Our previous study found that more than 500 transcripts significantly increased in abundance in the zebrafish and mouse several hours to days postmortem relative to live controls. The current literature sugges...

    Authors: Peter A. Noble and Alexander E. Pozhitkov

    Citation: BMC Genomics 2018 19:675

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  39. Content type: Database

    Pseudocohnilembus persalinus, a unicellular ciliated protozoan, is one of commonest facultative pathogens. We sequenced the macronuclear genome of P. persalinus in 2015, which provided new insights into its patho...

    Authors: Wei Wei, Kai Chen, Wei Miao, Wentao Yang and Jie Xiong

    Citation: BMC Genomics 2018 19:676

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  41. Content type: Research article

    Plant fungal pathogens can rapidly evolve and adapt to new environmental conditions in response to sudden changes of host populations in agro-ecosystems. However, the genomic basis of their host adaptation, es...

    Authors: Chongjing Xia, Meinan Wang, Chuntao Yin, Omar E. Cornejo, Scot H. Hulbert and Xianming Chen

    Citation: BMC Genomics 2018 19:664

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  42. Content type: Research article

    Cytoplasmic male sterility (CMS) is a natural phenomenon of pollen abortion caused by the interaction between cytoplasmic genes and nuclear genes. CMS is a simple and effective pollination control system, and ...

    Authors: Linfeng Chen, Xianlong Ding, Hao Zhang, Tingting He, Yanwei Li, Tanliu Wang, Xiaoqiang Li, Ling Jin, Qijian Song, Shouping Yang and Junyi Gai

    Citation: BMC Genomics 2018 19:663

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  43. Content type: Research article

    Trihelix transcription factors (TTF) play important roles in plant growth and response to adversity stress. Until now, genome-wide identification and analysis of this gene family in foxtail millet has not been...

    Authors: Zhenyi Wang, Kanglu Zhao, Yuxin Pan, Jinpeng Wang, Xiaoming Song, Weina Ge, Min Yuan, Tianyu Lei, Li Wang, Lan Zhang, Yuxian Li, Tao Liu, Wei Chen, Wenjing Meng, Changkai Sun, Xiaobo Cui…

    Citation: BMC Genomics 2018 19:665

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  44. Content type: Research article

    So far, biocontrol agent selection has been performed mainly by time consuming in vitro confrontation tests followed by extensive trials in greenhouse and field. An alternative approach is offered by applicati...

    Authors: Francesca Fanelli, Vania Cosma Liuzzi, Antonio Francesco Logrieco and Claudio Altomare

    Citation: BMC Genomics 2018 19:662

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  45. Content type: Research article

    To explore long non-coding RNA (lncRNA), mRNA and circular RNA (circRNA) expression profiles and their biological functions in the pathogenesis of kidney stones in ethylene glycol-induced urolithiasis rats.

    Authors: Yanan Cao, Xiaowei Gao, Yue Yang, Zhi Ye, E. Wang and Zhitao Dong

    Citation: BMC Genomics 2018 19:660

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  46. Content type: Research article

    Pectin is a major component and structural polysaccharide of the primary cell walls and middle lamella of higher plants. Pectate lyase (PEL, EC 4.2.2.2), a cell wall modification enzyme, degrades de-esterified...

    Authors: Huiru Sun, Pengbo Hao, Qiang Ma, Meng Zhang, Yuan Qin, Hengling Wei, Junji Su, Hantao Wang, Lijiao Gu, Nuohan Wang, Guoyuan Liu and Shuxun Yu

    Citation: BMC Genomics 2018 19:661

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  47. Content type: Research article

    Intermittent fasting and time-restricted diets are associated with lower risk biomarkers for cardio-metabolic disease. The shared mechanisms underpinning the similar physiological response to these events is n...

    Authors: Alexessander Couto Alves, Craig A. Glastonbury, Julia S. El-Sayed Moustafa and Kerrin S. Small

    Citation: BMC Genomics 2018 19:659

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  49. Content type: Research article

    Improving resistance to mastitis, one of the costliest diseases in dairy production, has become an important objective in dairy cattle breeding. However, mastitis resistance is influenced by many genes involve...

    Authors: Zexi Cai, Bernt Guldbrandtsen, Mogens Sandø Lund and Goutam Sahana

    Citation: BMC Genomics 2018 19:656

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  50. Content type: Research article

    The transient middle cerebral artery occlusion (tMCAO) model is used for studying the molecular mechanisms of ischemic damage and neuroprotection. Numerous studies have demonstrated the role of individual gene...

    Authors: Lyudmila V. Dergunova, Ivan B. Filippenkov, Vasily V. Stavchansky, Alina E. Denisova, Vadim V. Yuzhakov, Sergey A. Mozerov, Leonid V. Gubsky and Svetlana A. Limborska

    Citation: BMC Genomics 2018 19:655

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