Article
Plant Sciences
Arjan Banerjee, Sasa Stefanovic
Summary: Most species in Cuscuta subgenus Grammica retain photosynthesis-related plastid genes, but some holoparasitic species in section Subulatae may have lost their plastid genomes entirely.
Article
Biology
Yanxiang Lin, Pan Li, Yuchan Zhang, Delara Akhter, Ronghui Pan, Zhixi Fu, Mingqing Huang, Xiaobo Li, Yanlei Feng
Summary: Our study assembled and analyzed 22 new mitogenomes and 12 new plastomes in the Convolvulaceae family. We found variations in both the plastid and mitochondrial genomes of these plants that were rarely observed in other angiosperms. Dodders, in particular, showed gene and intron losses, duplications, structural variations, and insertions of foreign DNAs. The phylogeny reconstructed by plastid protein coding sequences confirmed the previous relationships of the tribes. The mitogenome in Cuscuta japonica was significantly larger and integrated massive DNAs from other species, while other dodders maintained small-sized mitogenomes, revealing diverse evolutionary strategies. Mutations unique to plants were found in the mitochondrial gene ccmFc, which has undergone gene fission and splicing shift. Our findings provide valuable insights into the evolution of Convolvulaceae and plant parasitism.
Article
Plant Sciences
Qiqi Chen, Pan Shen, Ralph Bock, Shengchun Li, Jiang Zhang
Summary: A global survey of plastid gene expression during fruit ripening in kiwifruit reveals cis-elements that can potentially trigger high-level transgene expression in edible tissues, providing valuable resources for analyzing plastid gene expression and future efforts to engineer the plastid genome of kiwifruit.
PLANT CELL REPORTS
(2022)
Review
Cell Biology
Jigeesha Mukhopadhyay, Georg Hausner
Summary: Introns in organellar genomes play important roles in encoding proteins and participating in non-canonical splicing. Different types of introns show diverse distribution patterns in fungi, plants, and algae.
Article
Biochemistry & Molecular Biology
Kacper Maciszewski, Nadja Dabbagh, Angelika Preisfeld, Anna Karnkowska
Summary: Organellar genomes often carry group II introns, which occasionally encode proteins called maturases that are important for splicing. The number of introns varies among different organellar genomes, and bursts of introns have been observed in multiple eukaryotic lineages, including euglenophytes. The study found that maturase content in euglenophyte plastid genomes has a patchy distribution, and most of the maturases have lost at least one functional domain. The origins of the maturases are diversified, acquired along with the green algal plastid or horizontally transferred.
MOLECULAR PHYLOGENETICS AND EVOLUTION
(2022)
Article
Multidisciplinary Sciences
Landen Gozashti, Scott W. Roy, Bryan Thornlow, Alexander Kramer, Manuel Ares, Russell Corbett-Detig
Summary: There is significant variation in intron numbers across eukaryotic genomes, and the major drivers of intron content during evolution remain unclear. This study identified 27,563 introns derived from specialized transposons called Introners in 175 eukaryotic genomes, indicating that Introners may explain the episodic nature of intron gain across the eukaryotic tree of life. Species with Introners span diverse phylogenetic backgrounds, and aquatic organisms are more likely to contain Introners. The mechanistic diversity of Introners suggests convergent evolution from nonautonomous transposable elements.
PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
(2022)
Article
Biochemistry & Molecular Biology
Romain Gastineau, Nikolai A. Davidovich, Olga I. Davidovich, Claude Lemieux, Monique Turmel, Rafal J. Wrobel, Andrzej Witkowski
Summary: In this study, the plastid genomes of three diatoms from the genus Climaconeis were sequenced, with two strains of Climaconeis scalaris having the largest genomes ever sequenced among diatoms. Significant rearrangements of gene order were identified in the two populations of Climaconeis cf. scalaris. Another sequenced Climaconeis chloroplast genome was 1.5 times smaller than those of the Climaconeis cf. scalaris strains and had a different quadripartite structure. Extensive structural changes in the Climaconeis genus were compared with those seen in other algae and plants with large plastid genomes.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2021)
Article
Genetics & Heredity
Ueric Jose Borges de Souza, Raissa Nunes dos Santos, Renisson Neponuceno de Araujo Filho, Gil Rodrigues dos Santos, Renato Almeida Sarmento, Fabien De Bellis, Fabricio Souza Campos
Summary: The study reported the assembly of the cp genome of Artocarpus altilis and its phylogeny in the Moraceae family, highlighting the genetic proximity between Artocarpus and Morus, as well as the genetic similarity between A. camansi and A. altilis.
MITOCHONDRIAL DNA PART B-RESOURCES
(2021)
Article
Plant Sciences
Alexa S. Tyszka, Eric C. Bretz, Holly M. Robertson, Miles D. Woodcock-Girard, Karolis Ramanauskas, Drew A. Larson, Gregory W. Stull, Joseph F. Walker
Summary: Chloroplasts and mitochondria have their own genomes and have been important for inferring land plant phylogeny. This study examined the genomes of 226 land plants to investigate the similarity between the evolutionary histories of these organelles. The results showed mostly concordant topologies, except for a few conflicting relationships that need further investigation. The findings suggest significant differences in molecular evolution between the chloroplast and mitochondrial genomes, indicating the need for separate evolutionary models.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Luxian Liu, Yonghua Zhang, Pan Li
Summary: This study analyzed phylogenetic relationships within the Celtis genus and developed genome resources using genome skimming data from five Celtis species. The plastomes of Celtis showed a relatively conserved content and structure, with no signs of gene loss, translocations, inversions, or genome rearrangement. Additionally, plastid hotspot regions, polymorphic nuclear SSRs, and low or single-copy gene fragments were identified within Celtis.
Article
Plant Sciences
Shujing Chen, Xinhuang Zeng, Yiqi Li, Shijun Qiu, Xiaoqun Peng, Xinjue Xie, Yujie Liu, Chancan Liao, Xiaoyan Tang, Jianxin Wu
Summary: This study investigated the functions of plant plastid ribosomal protein L18s (PRPL18s) and found that they play critical roles in plastid ribosome biogenesis, plastid intron splicing, and chloroplast development, and are essential for plant survival.
FRONTIERS IN PLANT SCIENCE
(2022)
Article
Plant Sciences
Shenjian Xu, Ke Teng, Hui Zhang, Kang Gao, Juying Wu, Liusheng Duan, Yuesen Yue, Xifeng Fan
Summary: In this study, a hybrid assembly approach of second- and third-generation sequencing was used to investigate the chloroplast genomes of Carex species, revealing their long lengths, high sequence rearrangement rates, low GC content and gene density, and increased repetitive sequences. The study also demonstrated the phylogenetic significance of structural variation in the chloroplast genome of Carex and provided an important reference for the analysis of chloroplast genome rearrangements in other taxa.
FRONTIERS IN PLANT SCIENCE
(2023)
Article
Plant Sciences
Soyun Kim, Hayoung Song, Yoonkang Hur
Summary: This study found that the overexpression of intron-retained forms of the RsMYB1 and RsTT8 genes in radish can significantly increase anthocyanin accumulation in plants. However, these retained intron forms encode proteins that cannot form the MBW complex, yet their co-expression in tobacco leaves leads to higher anthocyanin accumulation.
PLANT CELL REPORTS
(2021)
Article
Plant Sciences
Sofia Shevtsov-Tal, Corinne Best, Roei Matan, Sam A. Chandran, Gregory G. Brown, Oren Ostersetzer-Biran
Summary: Plant organellar introns have degenerated during evolution, relying on host-acting protein cofactors for splicing, which may link cellular signals with respiratory functions.
Article
Plant Sciences
Yijun Meng, Xiaoxia Ma, Jie Li, Hidetaka Ito, Krystyna Oracz, Jiahui Cai, Chaogang Shao
Summary: This study reveals the novel role of plant AGO proteins in intron splicing by demonstrating their involvement in the RNA interference pathway. The research shows that AGOs can either positively or negatively regulate intron excision in Arabidopsis. Furthermore, organ-specific regulation of AGO-dependent introns was observed. RIP-seq data supports the high intron binding affinities of AGOs. Identifying protein interactors involved in mRNA binding provides insight into the mechanisms underlying AGO-mediated RNA splicing. The study also highlights the importance of AGO18 in intron expression in rice.
JOURNAL OF PLANT PHYSIOLOGY
(2022)
Article
Plant Sciences
Kirsten Krause, Hanne R. Johnsen, Anna Pielach, Leidulf Lund, Karsten Fischer, Jocelyn K. C. Rose
PHYSIOLOGIA PLANTARUM
(2018)
Article
Plant Sciences
Marlene Teubner, Janina Fuss, Kristina Kuehn, Kirsten Krause, Christian Schmitz-Linneweber
Editorial Material
Plant Sciences
Thorsten Hamann, Anna Kaerkoenen, Kirsten Krause
PHYSIOLOGIA PLANTARUM
(2018)
Article
Multidisciplinary Sciences
Alexander Vogel, Rainer Schwacke, Alisandra K. Denton, Bjoern Usadel, Julien Hollmann, Karsten Fischer, Anthony Bolger, Maximilian H. -W. Schmidt, Marie E. Bolger, Heidrun Gundlach, Klaus F. X. Mayer, Hanna Weiss-Schneeweiss, Eva M. Temsch, Kirsten Krause
NATURE COMMUNICATIONS
(2018)
Article
Multidisciplinary Sciences
Stian Olsen, Kirsten Krause
Article
Biochemistry & Molecular Biology
Rainer Schwacke, Gabriel Y. Ponce-Soto, Kirsten Krause, Anthony M. Bolger, Borjana Arsova, Asis Hallab, Kristina Gruden, Mark Stitt, Marie E. Bolger, Bjoern Usadel
Review
Plant Sciences
Andrew F. Galloway, Paul Knox, Kirsten Krause
Article
Plant Sciences
Frank Foerste, Ioanna Mantouvalou, Birgit Kanngiesser, Hagen Stosnach, Lena Anna-Maria Lachner, Karsten Fischer, Kirsten Krause
PHYSIOLOGIA PLANTARUM
(2020)
Article
Plant Sciences
Marlene Teubner, Benjamin Lenzen, Lucas Bernal Espenberger, Janina Fuss, Joerg Nickelsen, Kirsten Krause, Hannes Ruwe, Christian Schmitz-Linneweber
Article
Plant Sciences
Lena Anna-Maria Lachner, Levon Galstyan, Kirsten Krause
Article
Plant Sciences
Thomas Bawin, Julien Bruckmueller, Stian Olsen, Kirsten Krause
Summary: This study provides a framework for more reproducible investigations of haustoriogenesis and the processes governing host-parasite interactions in shoot parasites, using Cuscuta campestris as a model species.
PHYSIOLOGIA PLANTARUM
(2022)
Review
Plant Sciences
Maleen Hartenstein, Markus Albert, Kirsten Krause
Summary: Cuscuta research, which has lasted for over a century, has made significant contributions to our understanding of the parasitic angiosperm genus. Early studies established the phylogenetic framework, while recent breakthroughs in molecular basis of parasitism have been facilitated by modern technologies. This review connects the past breakthroughs to current research activities and explores future directions in this growing field.
JOURNAL OF EXPERIMENTAL BOTANY
(2023)
Article
Plant Sciences
Zahra Zangishei, Maria Luz Annacondia, Heidrun Gundlach, Alena Didriksen, Julien Bruckmuller, Hooman Salari, Kirsten Krause, German Martinez
Summary: The RNA silencing machinery in parasitic plants shows similar evolutionary signatures, and microRNAs reflect the lifestyle of the parasites.
Review
Green & Sustainable Science & Technology
Hannah Schweitzer, Nerea J. Aalto, Wolfgang Busch, Dennis Tin Chat Chan, Matteo Chiesa, Edel O. Elvevoll, Robin Gerlach, Kirsten Krause, Karel Mocaer, James J. Moran, Joseph P. Noel, Shalaka Kiran Patil, Yannick Schwab, Rene H. Wijffels, Angela Wulff, Lise Ovreas, Hans C. Bernstein
Summary: The article discusses next-generation biotechnologies inspired by ecological processes to achieve carbon capture, sequestration, and utilization, focusing on identifying and utilizing control points for CO2 and CH4 to drive innovation in carbon capture technologies.
Article
Biochemistry & Molecular Biology
Bernd Striberny, Anthony E. Melton, Rainer Schwacke, Kirsten Krause, Karsten Fischer, Leslie R. Goertzen, Aaron M. Rashotte
PLANT SIGNALING & BEHAVIOR
(2017)