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Select item 70569661.

The Tempo and Mode of Angiosperm Mitochondrial Genome Divergence Inferred from Intraspecific Variation in Arabidopsis thaliana

Zhiqiang Wu, Gus Waneka, Daniel B. Sloan

G3 (Bethesda) 2020 Mar; 10(3): 1077–1086. Published online 2020 Jan 21. doi: 10.1534/g3.119.401023

PMCID:: PMC7056966

Abstract Article PDF–1.5M

Select item 69860052.

The complete chloroplast genome of greater duckweed (Spirodela polyrhiza 7498) using PacBio long reads: insights into the chloroplast evolution and transcription regulation

Yating Zhang, Dong An, Changsheng Li, Zhixuan Zhao, Wenqin Wang

BMC Genomics. 2020; 21: 76. Published online 2020 Jan 28. doi: 10.1186/s12864-020-6499-y

PMCID:: PMC6986005

Abstract Article PDF–1.9M

Select item 69332383.

Comparative analysis of cp genome of Fagonia indica growing in desert and its implications in pattern of similarity and variations

Mohamed Soliman Elshikh, Soo-Yong Kim, Mohammad Ajmal Ali, Fahad Al-Hemaid, Shen-Ming Chen, Sangho Choi, Mohammad Oliur Rahman, Meena Elangbam, Joongku Lee

Saudi J Biol Sci. 2020 Jan; 27(1): 229–232. Published online 2019 Aug 31. doi: 10.1016/j.sjbs.2019.08.016

PMCID:: PMC6933238

Abstract Article PDF–1.6M

Select item 68474054.

Unique Shine–Dalgarno Sequences in Cyanobacteria and Chloroplasts Reveal Evolutionary Differences in Their Translation Initiation

Yulong Wei, Xuhua Xia

Genome Biol Evol. 2019 Nov; 11(11): 3194–3206. Published online 2019 Oct 22. doi: 10.1093/gbe/evz227

PMCID:: PMC6847405

Abstract Article PDF–1.0M

Select item 68380685.

A New Chloroplast DNA Extraction Protocol Significantly Improves the Chloroplast Genome Sequence Quality of Foxtail Millet (Setaria italica (L.) P. Beauv.)

Dan Liu, Yanjiao Cui, Suying Li, Guihua Bai, Qiang Li, Zilong Zhao, Dan Liang, Conglei Wang, Jianhe Wang, Xiaowei Shi, Chao Chen, Gang Feng, Zhengli Liu

Sci Rep. 2019; 9: 16227. Published online 2019 Nov 7. doi: 10.1038/s41598-019-52786-2

PMCID:: PMC6838068

Abstract Article PDF–3.4M

Select item 68352076.

PCIR: a database of Plant Chloroplast Inverted Repeats

Rui Zhang, Fangfang Ge, Huayang Li, Yudong Chen, Ying Zhao, Ying Gao, Zhiguo Liu, Long Yang

Database (Oxford) 2019; 2019: baz127. Published online 2019 Nov 7. doi: 10.1093/database/baz127

PMCID:: PMC6835207

Abstract Article PDF–97M

Select item 67132947.

Ribonucleoprotein Capture by in Vivo Expression of a Designer Pentatricopeptide Repeat Protein in Arabidopsis

James J. McDermott, Kenneth P. Watkins, Rosalind Williams-Carrier, Alice Barkan

Plant Cell. 2019 Aug; 31(8): 1723–1733. Published online 2019 May 23. doi: 10.1105/tpc.19.00177

PMCID:: PMC6713294

Abstract Article PDF–2.0M

Select item 66624678.

Analyzing and Characterizing the Chloroplast Genome of Salix wilsonii

Yingnan Chen, Nan Hu, Huaitong Wu

Biomed Res Int. 2019; 2019: 5190425. Published online 2019 Jul 15. doi: 10.1155/2019/5190425

PMCID:: PMC6662467

Abstract Article PDF–1.4M

Select item 66089309.

Extensive chloroplast genome rearrangement amongst three closely related Halamphora spp. (Bacillariophyceae), and evidence for rapid evolution as compared to land plants

Sarah E. Hamsher, Kyle G. Keepers, Cloe S. Pogoda, Joshua G. Stepanek, Nolan C. Kane, J. Patrick Kociolek

PLoS One. 2019; 14(7): e0217824. Published online 2019 Jul 3. doi: 10.1371/journal.pone.0217824

PMCID:: PMC6608930

Abstract Article PDF–2.0M

Select item 660246710.

CPGAVAS2, an integrated plastome sequence annotator and analyzer

Linchun Shi, Haimei Chen, Mei Jiang, Liqiang Wang, Xi Wu, Linfang Huang, Chang Liu

Nucleic Acids Res. 2019 Jul 2; 47(W1): W65–W73. Published online 2019 May 8. doi: 10.1093/nar/gkz345

PMCID:: PMC6602467

Abstract Article PDF–3.4M

Select item 659808111.

Aethionema arabicum: a novel model plant to study the light control of seed germination

Zsuzsanna Mérai, Kai Graeber, Per Wilhelmsson, Kristian K Ullrich, Waheed Arshad, Christopher Grosche, Danuše Tarkowská, Veronika Turečková, Miroslav Strnad, Stefan A Rensing, Gerhard Leubner-Metzger, Ortrun Mittelsten Scheid

J Exp Bot. 2019 Jun 1; 70(12): 3313–3328. Published online 2019 Apr 5. doi: 10.1093/jxb/erz146

PMCID:: PMC6598081

Abstract Article PDF–1.3M

Select item 658954912.

De novo whole-genome assembly in Chrysanthemum seticuspe, a model species of Chrysanthemums, and its application to genetic and gene discovery analysis

Hideki Hirakawa, Katsuhiko Sumitomo, Tamotsu Hisamatsu, Soichiro Nagano, Kenta Shirasawa, Yohei Higuchi, Makoto Kusaba, Masaji Koshioka, Yoshihiro Nakano, Masafumi Yagi, Hiroyasu Yamaguchi, Kenji Taniguchi, Michiharu Nakano, Sachiko N Isobe

DNA Res. 2019 Jun; 26(3): 195–203. Published online 2019 Jan 27. doi: 10.1093/dnares/dsy048

PMCID:: PMC6589549

Abstract Article PDF–1.6M

Select item 652916013.

A chromosome-level sequence assembly reveals the structure of the Arabidopsis thaliana Nd-1 genome and its gene set

Boas Pucker, Daniela Holtgräwe, Kai Bernd Stadermann, Katharina Frey, Bruno Huettel, Richard Reinhardt, Bernd Weisshaar

PLoS One. 2019; 14(5): e0216233. Published online 2019 May 21. doi: 10.1371/journal.pone.0216233

PMCID:: PMC6529160

Abstract Article PDF–1.1M

Select item 648680814.

Tracing the Evolution of the Plastome and Mitogenome in the Chloropicophyceae Uncovered Convergent tRNA Gene Losses and a Variant Plastid Genetic Code

Monique Turmel, Adriana Lopes dos Santos, Christian Otis, Roxanne Sergerie, Claude Lemieux

Genome Biol Evol. 2019 Apr; 11(4): 1275–1292. Published online 2019 Apr 1. doi: 10.1093/gbe/evz074

PMCID:: PMC6486808

Abstract Article PDF–2.9M

Select item 647432515.

PPR Protein BFA2 Is Essential for the Accumulation of the atpH/F Transcript in Chloroplasts

Lin Zhang, Wen Zhou, Liping Che, Jean-David Rochaix, Congming Lu, Wenjing Li, Lianwei Peng

Front Plant Sci. 2019; 10: 446. Published online 2019 Apr 12. doi: 10.3389/fpls.2019.00446

PMCID:: PMC6474325

Abstract Article PDF–6.4M

Select item 644722816.

Transcription is a major driving force for plastid genome instability in Arabidopsis

Juliana Andrea Pérez Di Giorgio, Étienne Lepage, Samuel Tremblay-Belzile, Sébastien Truche, Audrey Loubert-Hudon, Normand Brisson

PLoS One. 2019; 14(4): e0214552. Published online 2019 Apr 3. doi: 10.1371/journal.pone.0214552

PMCID:: PMC6447228

Abstract Article PDF–2.8M

Select item 642012317.

High-efficiency generation of fertile transplastomic Arabidopsis plants

Stephanie Ruf, Joachim Forner, Claudia Hasse, Xenia Kroop, Stefanie Seeger, Laura Schollbach, Anne Schadach, Ralph Bock

Nat Plants. Author manuscript; available in PMC 2019 Aug 18.

Published in final edited form as: Nat Plants. 2019 Mar; 5(3): 282–289. Published online 2019 Feb 18. doi: 10.1038/s41477-019-0359-2

PMCID:: PMC6420123

Abstract Article PDF–1.5M

Select item 641692418.

GRIBCG: a software for selection of sgRNAs in the design of balancer chromosomes

Brian B. Merritt, Lily S. Cheung

BMC Bioinformatics. 2019; 20: 122. Published online 2019 Mar 12. doi: 10.1186/s12859-019-2712-x

PMCID:: PMC6416924

Abstract Article PDF–1.4M

Select item 636260219.

A comparative evaluation of hybrid error correction methods for error-prone long reads

Shuhua Fu, Anqi Wang, Kin Fai Au

Genome Biol. 2019; 20: 26. Published online 2019 Feb 4. doi: 10.1186/s13059-018-1605-z

PMCID:: PMC6362602

Abstract Article PDF–2.3M

Select item 635438920.

Usability of reference-free transcriptome assemblies for detection of differential expression: a case study on Aethionema arabicum dimorphic seeds

Per K. I. Wilhelmsson, Jake O. Chandler, Noe Fernandez-Pozo, Kai Graeber, Kristian K. Ullrich, Waheed Arshad, Safina Khan, Johannes A. Hofberger, Karl Buchta, Patrick P. Edger, J. Chris Pires, M. Eric Schranz, Gerhard Leubner-Metzger, Stefan A. Rensing

BMC Genomics. 2019; 20: 95. Published online 2019 Jan 30. doi: 10.1186/s12864-019-5452-4