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GC-content distribution of the metagenomes reads sampled from NPP sites.

Rosane Silva (398005)
Darcy Muniz de Almeida (5819870)
Bianca Catarina Azeredo Cabral (5819873)
Victor Hugo Giordano Dias (5819876)
Isadora Cristina de Toledo e Mello (5819879)
Turán Péter Ürményi (5819882)
August E. Woerner (261456)
Rodrigo Soares de Moura Neto (5819885)
Bruce Budowle (322785)
Cristina Aparecida Gomes Nassar (5819888)

Publication date

October 2018

DOI

10.1371/journal.pone.0205228.g001

Publisher

Public Library of Science (PLoS)

Abstract

GC-content (%) for the total number of reads sequenced in SFP, FTC, DD and WD.</p

Extracted data

Related items

GC content and average sequencing depth of the genome data used for assembly.

Min Lu (238723)
Huaming An (2154466)
Liangliang Li (1936771)

February 2016

<p>The x-axis was GC content percent across every 10-kb non-overlapping sliding window.</p

GC content (%) of actinorhodopsin sequences.

Jitka Jezberová (176484)
Jan Jezbera (176497)
Martin W. Hahn (176468)

July 2013

<p>GC content (%) of actinorhodopsin sequences in various LG1 groups. Sequence lengths 291 bp.</p

The distribution between RRN and Sequencing GC content before and after GC correction.

Chunlei Zhang (276100)
Chunsheng Zhang (113054)
Shengpei Chen (180910)
Xuyang Yin (276101)
Xiaoyu Pan (31050)
Ge Lin (276102)
Yueqiu Tan (276103)
Ke Tan (276104)
Zhengfeng Xu (276105)
Ping Hu (59156)
Xuchao Li (180914)
Fang Chen (34476)
Xun Xu (276108)
Yingrui Li (149030)
Xiuqing Zhang (133860)
Hui Jiang (102809)
Wei Wang (17594)

January 2013

<p>The distribution of relative reads number (RRN, y-axis) and the corrected relative reads number (...

Distribution of the GC content percentage for ZC1 and ZC2 compared with selected metagenomes.

Layla Farage Martins (406604)
Luciana Principal Antunes (406605)
Renata C. Pascon (406606)
Julio Cezar Franco de Oliveira (406607)
Luciano A. Digiampietri (406608)
Deibs Barbosa (406609)
Bruno Malveira Peixoto (406610)
Marcelo A. Vallim (406611)
Cristina Viana-Niero (406612)
Eric H. Ostroski (406613)
Guilherme P. Telles (406614)
Zanoni Dias (406615)
João Batista da Cruz (406616)
Luiz Juliano (56592)
Sergio Verjovski-Almeida (15312)
Aline Maria da Silva (406617)
João Carlos Setubal (406618)

April 2013

<p>Each position represents the percentage of sequences reads within a GC percentage range. Sources:...

All sample GC content versus number of reads.

Yongmei Zhao (182070)
Monika Mehta (481016)
Ashley Walton (6668024)
Keyur Talsania (6668027)
Yelena Levin (6668030)
Jyoti Shetty (45365)
Elizabeth M. Gillanders (776762)
Bao Tran (273793)
Danielle Mercatante Carrick (776750)

May 2019

The plot shows the GC distribution scaled to 100 bins. The vertical bars with the same color denote ...

Average GC content of coding regions compared to the genome size for selected bacteria.

Matt Ravenhall (746578)
Nives Škunca (105906)
Florent Lassalle (5017697)
Christophe Dessimoz (18084)

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<p>There is considerable variation in average GC content across species, which makes it relevant as ...

Density plot of GC content by phyla of NCBI completed Bacterial and Euryarchaeota genomes

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<p>Density plot of GC content by phyla of NCBI completed Bacterial and Euryarchaeota genomes.</p

Contour plot of the proposed GC normalization model.

Philippe Chouvarine (232556)
Lutz Wiehlmann (41065)
Patricia Moran Losada (3228918)
David S. DeLuca (517785)
Burkhard Tümmler (4273)

October 2016

<p>The model approximates expected normalized coverage of genomic regions stratified by their GC con...

Variation of coverage with GC content in the three sequencing technologies.

Aakrosh Ratan (279792)
Webb Miller (48197)
Joseph Guillory (279793)
Jeremy Stinson (279794)
Somasekar Seshagiri (83458)
Stephan C. Schuster (49472)

February 2013

<p>The red line shows the mean coverage across the whole genome. Each point on the plot reflects the...

GC content and average sequencing depth of the genome data used for assembly.

Wei Zhou (24328)
Yiyi Hu (433827)
Zhenghong Sui (433828)
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Jinguo Wang (433829)
Lianpeng Chang (433830)
Weihua Guo (404773)
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July 2013

<p>(The x-axis was GC content percent across every 10-kb non-overlapping sliding window).</p

Phylogenetic distribution of metagenome reads according to best BLAST hits IMG database isolate genomes.

Emily B. Hollister (156772)
Andrea K. Forrest (156777)
Heather H. Wilkinson (156780)
Daniel J. Ebbole (156786)
Susannah G. Tringe (43680)
Stephanie A. Malfatti (124718)
Mark T. Holtzapple (156792)
Terry J. Gentry (156799)

June 2012

<p>Phylogenetic distribution of metagenome reads according to best BLAST hits IMG database isolate g...

GC rate with novel CDSs and regions corresponding to gaps in the previous genome.

Mayumi Kamada (645875)
Sumitaka Hase (645876)
Kengo Sato (445249)
Atsushi Toyoda (24202)
Asao Fujiyama (140709)
Yasubumi Sakakibara (241039)

October 2014

<p>GC rate was calculated with a 10,000-bp window. For the GC plot, pink and blue indicate an above-...

Distribution of GC Content by Domain − Bacterial and Archaeal Genomes from JGI

Ara Kooser (100048)

June 2014

<p>Distribution of GC Content by Domain − Bacterial and Archaeal Genomes from JGI</p> <p>This is a p...

Metagenomic analysis of all sequence raw data from the different studied conditions.

Toon Rosseel (313761)
Steven Van Borm (313768)
Frank Vandenbussche (313767)
Bernd Hoffmann (191620)
Thierry van den Berg (371067)
Martin Beer (222377)
Dirk Höper (193333)

September 2013

<p>Metagenomic analysis of all sequence raw data from the different studied conditions.</p

Distribution of the GC content in microsatellites among different nucleotide types found in the transcriptome of <i>A. polytricha</i>.

Yan Zhou (6523)
Lianfu Chen (534803)
Xiuzhi Fan (534804)
Yinbing Bian (534805)

March 2014

<p>Distribution of the GC content in microsatellites among different nucleotide types found in the t...

GC content and average sequencing depth of the genome data used for assembly.

Min Lu (238723)
Huaming An (2154466)
Liangliang Li (1936771)

February 2016

<p>The x-axis was GC content percent across every 10-kb non-overlapping sliding window.</p

GC content (%) of actinorhodopsin sequences.

Jitka Jezberová (176484)
Jan Jezbera (176497)
Martin W. Hahn (176468)

July 2013

<p>GC content (%) of actinorhodopsin sequences in various LG1 groups. Sequence lengths 291 bp.</p

The distribution between RRN and Sequencing GC content before and after GC correction.

Chunlei Zhang (276100)
Chunsheng Zhang (113054)
Shengpei Chen (180910)
Xuyang Yin (276101)
Xiaoyu Pan (31050)
Ge Lin (276102)
Yueqiu Tan (276103)
Ke Tan (276104)
Zhengfeng Xu (276105)
Ping Hu (59156)
Xuchao Li (180914)
Fang Chen (34476)
Xun Xu (276108)
Yingrui Li (149030)
Xiuqing Zhang (133860)
Hui Jiang (102809)
Wei Wang (17594)

January 2013

<p>The distribution of relative reads number (RRN, y-axis) and the corrected relative reads number (...

Distribution of the GC content percentage for ZC1 and ZC2 compared with selected metagenomes.

Layla Farage Martins (406604)
Luciana Principal Antunes (406605)
Renata C. Pascon (406606)
Julio Cezar Franco de Oliveira (406607)
Luciano A. Digiampietri (406608)
Deibs Barbosa (406609)
Bruno Malveira Peixoto (406610)
Marcelo A. Vallim (406611)
Cristina Viana-Niero (406612)
Eric H. Ostroski (406613)
Guilherme P. Telles (406614)
Zanoni Dias (406615)
João Batista da Cruz (406616)
Luiz Juliano (56592)
Sergio Verjovski-Almeida (15312)
Aline Maria da Silva (406617)
João Carlos Setubal (406618)

April 2013

<p>Each position represents the percentage of sequences reads within a GC percentage range. Sources:...

All sample GC content versus number of reads.

Yongmei Zhao (182070)
Monika Mehta (481016)
Ashley Walton (6668024)
Keyur Talsania (6668027)
Yelena Levin (6668030)
Jyoti Shetty (45365)
Elizabeth M. Gillanders (776762)
Bao Tran (273793)
Danielle Mercatante Carrick (776750)

May 2019

The plot shows the GC distribution scaled to 100 bins. The vertical bars with the same color denote ...

Average GC content of coding regions compared to the genome size for selected bacteria.

Matt Ravenhall (746578)
Nives Škunca (105906)
Florent Lassalle (5017697)
Christophe Dessimoz (18084)

May 2015

<p>There is considerable variation in average GC content across species, which makes it relevant as ...

Density plot of GC content by phyla of NCBI completed Bacterial and Euryarchaeota genomes

Ara Kooser (100048)

May 2014

<p>Density plot of GC content by phyla of NCBI completed Bacterial and Euryarchaeota genomes.</p

Contour plot of the proposed GC normalization model.

Philippe Chouvarine (232556)
Lutz Wiehlmann (41065)
Patricia Moran Losada (3228918)
David S. DeLuca (517785)
Burkhard Tümmler (4273)

October 2016

<p>The model approximates expected normalized coverage of genomic regions stratified by their GC con...

Variation of coverage with GC content in the three sequencing technologies.

Aakrosh Ratan (279792)
Webb Miller (48197)
Joseph Guillory (279793)
Jeremy Stinson (279794)
Somasekar Seshagiri (83458)
Stephan C. Schuster (49472)

February 2013

<p>The red line shows the mean coverage across the whole genome. Each point on the plot reflects the...

GC content and average sequencing depth of the genome data used for assembly.

Wei Zhou (24328)
Yiyi Hu (433827)
Zhenghong Sui (433828)
Feng Fu (218124)
Jinguo Wang (433829)
Lianpeng Chang (433830)
Weihua Guo (404773)
Binbin Li (433831)

July 2013

<p>(The x-axis was GC content percent across every 10-kb non-overlapping sliding window).</p

Phylogenetic distribution of metagenome reads according to best BLAST hits IMG database isolate genomes.

Emily B. Hollister (156772)
Andrea K. Forrest (156777)
Heather H. Wilkinson (156780)
Daniel J. Ebbole (156786)
Susannah G. Tringe (43680)
Stephanie A. Malfatti (124718)
Mark T. Holtzapple (156792)
Terry J. Gentry (156799)

June 2012

<p>Phylogenetic distribution of metagenome reads according to best BLAST hits IMG database isolate g...

GC rate with novel CDSs and regions corresponding to gaps in the previous genome.

Mayumi Kamada (645875)
Sumitaka Hase (645876)
Kengo Sato (445249)
Atsushi Toyoda (24202)
Asao Fujiyama (140709)
Yasubumi Sakakibara (241039)

October 2014

<p>GC rate was calculated with a 10,000-bp window. For the GC plot, pink and blue indicate an above-...

Distribution of GC Content by Domain − Bacterial and Archaeal Genomes from JGI

Ara Kooser (100048)

June 2014

<p>Distribution of GC Content by Domain − Bacterial and Archaeal Genomes from JGI</p> <p>This is a p...

Metagenomic analysis of all sequence raw data from the different studied conditions.

Toon Rosseel (313761)
Steven Van Borm (313768)
Frank Vandenbussche (313767)
Bernd Hoffmann (191620)
Thierry van den Berg (371067)
Martin Beer (222377)
Dirk Höper (193333)

September 2013

<p>Metagenomic analysis of all sequence raw data from the different studied conditions.</p

Distribution of the GC content in microsatellites among different nucleotide types found in the transcriptome of <i>A. polytricha</i>.

Yan Zhou (6523)
Lianfu Chen (534803)
Xiuzhi Fan (534804)
Yinbing Bian (534805)

March 2014

<p>Distribution of the GC content in microsatellites among different nucleotide types found in the t...

GC content and average sequencing depth of the genome data used for assembly.

Min Lu (238723)
Huaming An (2154466)
Liangliang Li (1936771)

February 2016

<p>The x-axis was GC content percent across every 10-kb non-overlapping sliding window.</p

GC content (%) of actinorhodopsin sequences.

Jitka Jezberová (176484)
Jan Jezbera (176497)
Martin W. Hahn (176468)

July 2013

<p>GC content (%) of actinorhodopsin sequences in various LG1 groups. Sequence lengths 291 bp.</p

The distribution between RRN and Sequencing GC content before and after GC correction.

Chunlei Zhang (276100)
Chunsheng Zhang (113054)
Shengpei Chen (180910)
Xuyang Yin (276101)
Xiaoyu Pan (31050)
Ge Lin (276102)
Yueqiu Tan (276103)
Ke Tan (276104)
Zhengfeng Xu (276105)
Ping Hu (59156)
Xuchao Li (180914)
Fang Chen (34476)
Xun Xu (276108)
Yingrui Li (149030)
Xiuqing Zhang (133860)
Hui Jiang (102809)
Wei Wang (17594)

January 2013

<p>The distribution of relative reads number (RRN, y-axis) and the corrected relative reads number (...