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https://www.readbyqxmd.com/read/28097059/the-complete-chloroplast-genome-sequence-of-an-endemic-monotypic-genus-hagenia-rosaceae-structural-comparative-analysis-gene-content-and-microsatellite-detection
#1
Andrew W Gichira, Zhizhong Li, Josphat K Saina, Zhicheng Long, Guangwan Hu, Robert W Gituru, Qingfeng Wang, Jinming Chen
Hagenia is an endangered monotypic genus endemic to the topical mountains of Africa. The only species, Hagenia abyssinica (Bruce) J.F. Gmel, is an important medicinal plant producing bioactive compounds that have been traditionally used by African communities as a remedy for gastrointestinal ailments in both humans and animals. Complete chloroplast genomes have been applied in resolving phylogenetic relationships within plant families. We employed high-throughput sequencing technologies to determine the complete chloroplast genome sequence of H...
2017: PeerJ
https://www.readbyqxmd.com/read/28095462/physiological-characterization-and-comparative-transcriptome-analysis-of-white-and-green-leaves-of-ananas-comosus-var-bracteatus
#2
Xia Li, Surapathrudu Kanakala, Yehua He, Xiaolan Zhong, Sanmiao Yu, Ruixue Li, Lingxia Sun, Jun Ma
Leaf coloration is one of the most important and attractive characteristics of Ananas comosus var. bracteatus. The chimeric character is not stable during the in vitro tissue culturing. Many regenerated plants lost economic values for the loss of the chimeric character of leaves. In order to reveal the molecular mechanisms involved in the albino phenotype of the leaf cells, the physiological and transcriptional differences between complete white (CWh) and green (CGr) leaf cells of A. comosus var. bracteatus were analyzed...
2017: PloS One
https://www.readbyqxmd.com/read/28095301/imaging-the-photosystem-i-photosystem-ii-chlorophyll-ratio-inside-the-leaf
#3
Emilie Wientjes, John Philippi, Jan Willem Borst, Herbert van Amerongen
Oxygenic photosynthesis is driven by photosystems I (PSI) and II (PSII). In plants the number of chlorophylls of PSI versus PSII is adjusted to the light irradiance spectrum. On a timescale of days, this is regulated at the level of protein concentration. Instead, on a timescale of minutes, it is regulated by the dynamic association of light-harvesting complex II with either PSI or PSII. Thus far very diverse values have been reported for the PSI/PSII chlorophyll ratio, ranging from 0.54 to 1.4. The methods used require the isolation of chloroplasts and are time consuming...
January 14, 2017: Biochimica et Biophysica Acta
https://www.readbyqxmd.com/read/28081198/molecular-analysis-of-chinese-celastrus-and-tripterygium-and-implications-in-medicinal-and-pharmacological-studies
#4
Xian-Yun Mu, Liang-Cheng Zhao, Zhi-Xiang Zhang
Celastrus and Tripterygium species, which are used in traditional Chinese medicine, have attracted much attention due to their anti-tumor promoting and neuroprotective activities, in addition to their applications in autoimmune disorders. However, systematic relationships between them and among species are unclear, and it may disturb their further medicinal utilization. In the present study, the molecular analysis of combined chloroplast and nuclear markers of all Chinese Celastrus and Tripterygium was performed, and clear inter- and intra-genus relationships were presented...
2017: PloS One
https://www.readbyqxmd.com/read/28078742/taxonomic-revision-of-the-agaraceae-with-a-description-of-neoagarum-gen-nov-and-reinstatement-of-thalassiophyllum
#5
Hiroshi Kawai, Takeaki Hanyuda, Gao Xu, Makoto Terauchi, Masahiko Miyata, Sandra C Lindstrom, Nina G Klochkova, Kathy Ann Miller
We confirmed the monophyly of the Agaraceae based on phylogenetic analyses of 6 mitochondrial and 6 chloroplast gene sequences from Agarum, Costaria, Dictyoneurum and Thalassiophyllum species as well as representative species from other laminarialean families. However, the genus Agarum was paraphyletic, comprising two independent clades, A. clathratum/A. turneri and A. fimbriatum/A. oharaense. The latter clade was genetically most closely related to Dictyoneurum spp., and morphologically the species shared a flattened stipe bearing fimbriae (potential secondary haptera) in the mid to upper portion...
January 12, 2017: Journal of Phycology
https://www.readbyqxmd.com/read/28078486/two-nadph-protochlorophyllide-oxidoreductase-por-isoforms-play-distinct-roles-in-environmental-adaptation-in-rice
#6
Choon-Tak Kwon, Suk-Hwan Kim, Giha Song, Dami Kim, Nam-Chon Paek
BACKGROUND: NADPH: protochlorophyllide oxidoreductase (POR) is an essential enzyme that catalyzes the photoreduction of protochlorophyllide to chlorophyllide, which is ultimately converted to chlorophyll in developing leaves. Rice has two POR isoforms, OsPORA and OsPORB. OsPORA is expressed in the dark during early leaf development; OsPORB is expressed throughout leaf development regardless of light conditions. The faded green leaf (fgl) is a loss-of-function osporB mutant that displays necrotic lesions and variegation in the leaves due to destabilized grana thylakoids, and has increased numbers of plastoglobules in the chloroplasts...
December 2017: Rice
https://www.readbyqxmd.com/read/28076891/comparative-genomics-of-mortierella-elongata-and-its-bacterial-endosymbiont-mycoavidus-cysteinexigens
#7
J Uehling, A Gryganskyi, K Hameed, T Tschaplinski, P K Misztal, S Wu, A Desirò, N Vande Pol, Z Du, A Zienkiewicz, K Zienkiewicz, E Morin, E Tisserant, R Splivallo, M Hainaut, B Henrissat, R Ohm, A Kuo, J Yan, A Lipzen, M Nolan, K LaButti, K Barry, A H Goldstein, J Labbé, C Schadt, G Tuskan, I Grigoriev, F Martin, R Vilgalys, G Bonito
Endosymbiosis of bacteria by eukaryotes is a defining feature of cellular evolution. In addition to well known bacterial origins for mitochondria and chloroplasts, multiple origins of bacterial endosymbiosis are known within the cells of diverse animals, plants, and fungi. Early-diverging lineages of terrestrial fungi harbor endosymbiotic bacteria belonging to the Burkholderiaceae. We sequenced the metagenome of the soil-inhabiting fungus Mortierella elongata and assembled the complete circular chromosome of its endosymbiont, Mycoavidus cysteinexigens, which we place within in a lineage of endofungal symbionts that are sister clade to Burkholderia...
January 11, 2017: Environmental Microbiology
https://www.readbyqxmd.com/read/28076289/from-bacteria-to-chloroplasts-evolution-of-the-chloroplast-srp-system
#8
Dominik Ziehe, Beatrix Dünschede, Danja Schünemann
Chloroplasts derive from a prokaryotic symbiont that lost most of its genes during evolution. As a result, the great majority of chloroplast proteins are encoded in the nucleus and are posttranslationally imported into the organelle. The chloroplast genome encodes only a few proteins. These include several multispan thylakoid membrane proteins which are synthesized on thylakoid-bound ribosomes and cotranslationally inserted into the membrane. During evolution, ancient prokaryotic targeting machineries were adapted and combined with novel targeting mechanisms to facilitate post- and cotranslational protein transport in chloroplasts...
January 10, 2017: Biological Chemistry
https://www.readbyqxmd.com/read/28075225/plants-contain-small-families-of-upf0016-proteins-including-the-photosynthesis-affected-mutant71-transporter
#9
Natalie Hoecker, Dario Leister, Anja Schneider
PHOTOSYNTHESIS AFFECTED MUTANT71 (PAM71) is an integral thylakoid membrane protein that functions in manganese uptake into the lumen. Manganese is needed in the thylakoid lumen to build up the inorganic Mn4CaO5 cluster, the catalytic center for water oxidation, and is hence indispensable for oxygen evolution. A recent study revealed that PAM71 is well conserved in plants and shares homology to GCR1 DEPENDENT TRANSLATION FACTOR1 (GDT1) and TRANSMEMBRANE PROTEIN 165 (TMEM165) in Saccharomyces cerevisiae and Homo sapiens, respectively...
January 11, 2017: Plant Signaling & Behavior
https://www.readbyqxmd.com/read/28074912/influences-of-calcium-silicate-on-chemical-forms-and-subcellular-distribution-of-cadmium-in-amaranthus-hypochondriacus-l
#10
Huanping Lu, Zhian Li, Jingtao Wu, Yong Shen, Yingwen Li, Bi Zou, Yetao Tang, Ping Zhuang
A pot experiment was conducted to investigate the effects of calcium silicate (CS) on the subcellular distribution and chemical forms of cadmium (Cd) in grain amaranths (Amaranthus hypochondriacus L. Cv. 'K112') grown in a Cd contaminated soil. Results showed that the dry weight and the photosynthetic pigments contents in grain amaranths increased significantly with the increasing doses of CS treatments, with the highest value found for the treatment of CS3 (1.65 g/kg). Compared with the control, application of CS4 (3...
January 11, 2017: Scientific Reports
https://www.readbyqxmd.com/read/28074287/responses-triggered-in-chloroplast-of-chlorella-variabilis-nc64a-by-long-term-association-with-paramecium-bursaria
#11
Ekaterina Minaeva, Elena Ermilova
The unicellular green alga Chlorella variabilis NC64A is an endosymbiont of the ciliate Paramecium bursaria. The host's control, including the transfer of biochemical substrates from P. bursaria to C. variabilis, is involved in symbiotic relationships. C. variabilis NC64A that had been re-infected to P. bursaria for more than 1 year and isolated from the host showed higher chlorophyll levels compared to those in free-living cells. Unlike the host, the expression of C. variabilis NC64A heat shock 70 kDa protein was independent of establishment of endosymbiosis...
January 11, 2017: Protoplasma
https://www.readbyqxmd.com/read/28073503/the-fate-of-cryptophyte-cell-organelles-in-the-ciliate-mesodinium-cf-rubrum-subjected-to-starvation
#12
Seung Won Nam, Jong Woo Park, Wonho Yih, Myung Gil Park, Woongghi Shin
Mesodinium rubrum Lohmann is a mixotrophic ciliate and one of the best studied species exhibiting acquired phototrophy. To investigate the fate of cryptophyte organelles in the ciliate subjected to starvation, we conducted ultrastructural studies of a Korean strain of M. cf. rubrum during a 10 week starvation experiments. Ingested cells of the cryptophyte Teleaulax amphioxeia were first enveloped by ciliate membrane, and then prey organelles, including ejectisomes, flagella, basal bodies and flagellar roots, were digested...
November 2016: Harmful Algae
https://www.readbyqxmd.com/read/28073468/cryptophyte-gene-regulation-in-the-kleptoplastidic-karyokleptic-ciliate-mesodinium-rubrum
#13
Gwang Hoon Kim, Ji Hee Han, Bora Kim, Jong Won Han, Seung Won Nam, Woongghi Shin, Jong Woo Park, Wonho Yih
Photosynthesis in the ciliate Mesodinium rubrum is achieved using a consortium of cryptophyte algal organelles enclosed in its specialized vacuole. A time-series microarray analysis was conducted on the photosynthetic ciliate using an oligochip containing 15,654 primers designed from EST data of the cryptophyte prey, Teleaulax amphioxeia. The cryptophycean nuclei were transcriptionally active over 13 weeks and approximately 13.5% of transcripts in the ciliate came from the sequestered nuclei. The cryptophyte nuclei and chloroplasts could divide in the ciliate, which were loosely synchronized with host cell division...
February 2016: Harmful Algae
https://www.readbyqxmd.com/read/28072865/reading-the-evolution-of-compartmentalization-in-the-ribosome-assembly-toolbox-the-yrg-protein-family
#14
Pablo Mier, Antonio J Pérez-Pulido, Emmanuel G Reynaud, Miguel A Andrade-Navarro
Reconstructing the transition from a single compartment bacterium to a highly compartmentalized eukaryotic cell is one of the most studied problems of evolutionary cell biology. However, timing and details of the establishment of compartmentalization are unclear and difficult to assess. Here, we propose the use of molecular markers specific to cellular compartments to set up a framework to advance the understanding of this complex intracellular process. Specifically, we use a protein family related to ribosome biogenesis, YRG (YlqF related GTPases), whose evolution is linked to the establishment of cellular compartments, leveraging the current genomic data...
2017: PloS One
https://www.readbyqxmd.com/read/28072544/why-can-unnatural-electron-acceptors-protect-photosynthesizing-organisms-but-kill-the-others
#15
Stanislav Anatolievich Pshenichnyuk, Alexei S Komolov
The polychlorinated compounds captafol (CPL) and 2,6-dichloroisonicotinic acid (INI) are able to protect plants acting as a fungicide or an inductor of plant resistance, respectively. At the same time, CPL and INI are dangerous for the respiratory organisms, i.e. mammalians, bacteria and fungi. The high electron-withdrawing ability of these compounds enables them to serve as unnatural electron acceptors in the cellular ambient near to electron transport pathways located in the thylakoid membrane of chloroplasts or in the mitochondrial respiratory chain...
January 10, 2017: Journal of Physical Chemistry. B
https://www.readbyqxmd.com/read/28069533/myrteae-phylogeny-calibration-biogeography-and-diversification-patterns-increased-understanding-in-the-most-species-rich-tribe-of-myrtaceae
#16
Thais N C Vasconcelos, Carol E B Proença, Berhaman Ahmad, Daniel S Aguilar, Reinaldo Aguilar, Bruno S Amorim, Keron Campbell, Itayguara R Costa, Plauto S De-Carvalho, Jair E Q Faria, Augusto Giaretta, Pepijn W Kooij, Duane F Lima, Fiorella F Mazine, Brigido Peguero, Gerhard Prenner, Matheus F Santos, Julia Soewarto, Astrid Wingler, Eve J Lucas
Myrteae (c. 2500 species; 51 genera) is the largest tribe of Myrtaceae and an ecologically important groups of angiosperms in the Neotropics. Systematic relationships in Myrteae are complex, hindering conservation initiatives and jeopardizing evolutionary modelling. A well-supported and robust phylogenetic hypothesis was here targeted towards a comprehensive understanding of the relationships within the tribe. The resultant topology was used as a base for key evolutionary analyses such as age estimation, historical biogeography and diversification rate patterns...
January 6, 2017: Molecular Phylogenetics and Evolution
https://www.readbyqxmd.com/read/28064061/description-of-hyalodiscus-flabellus-sp-nov-vampyrellida-rhizaria-and-identification-of-its-bacterial-endosymbiont-candidatus-megaira-polyxenophila-rickettsiales-alphaproteobacteria
#17
Sebastian Hess
The genus Hyalodiscus Hertwig and Lesser, 1874 comprises naked freshwater amoebae with a unique set of characters, namely a vibrant orange-red colour, a discoid or fan-shaped morphology, and a characteristic rolling locomotion. Some species feed on the chloroplasts of green algae and were regarded as relatives of Vampyrella Cienkowski, 1865. However, because of striking morphological differences and the lack of molecular data, the exact relationship of Hyalodiscus to vampyrellids is still obscure. Here, I describe Hyalodiscus flabellus sp...
December 7, 2016: Protist
https://www.readbyqxmd.com/read/28062590/shared-characteristics-underpinning-c4-leaf-maturation-derived-from-analysis-of-multiple-c3-and-c4-species-of-flaveria
#18
Britta M C Kümpers, Steven J Burgess, Ivan Reyna-Llorens, Richard Smith-Unna, Chris Boursnell, Julian M Hibberd
Most terrestrial plants use C3 photosynthesis to fix carbon. In multiple plant lineages a modified system known as C4 photosynthesis has evolved. To better understand the molecular patterns associated with induction of C4 photosynthesis, the genus Flaveria that contains C3 and C4 species was used. A base to tip maturation gradient of leaf anatomy was defined, and RNA sequencing was undertaken along this gradient for two C3 and two C4 Flaveria species. Key C4 traits including vein density, mesophyll and bundle sheath cross-sectional area, chloroplast ultrastructure, and abundance of transcripts encoding proteins of C4 photosynthesis were quantified...
January 6, 2017: Journal of Experimental Botany
https://www.readbyqxmd.com/read/28061749/organelle_pba-a-pipeline-for-assembling-chloroplast-and-mitochondrial-genomes-from-pacbio-dna-sequencing-data
#19
Aboozar Soorni, David Haak, David Zaitlin, Aureliano Bombarely
BACKGROUND: The development of long-read sequencing technologies, such as single-molecule real-time (SMRT) sequencing by PacBio, has produced a revolution in the sequencing of small genomes. Sequencing organelle genomes using PacBio long-read data is a cost effective, straightforward approach. Nevertheless, the availability of simple-to-use software to perform the assembly from raw reads is limited at present. RESULTS: We present Organelle-PBA, a Perl program designed specifically for the assembly of chloroplast and mitochondrial genomes...
January 7, 2017: BMC Genomics
https://www.readbyqxmd.com/read/28061748/complete-chloroplast-genome-of-gracilaria-firma-gracilariaceae-rhodophyta-with-discussion-on-the-use-of-chloroplast-phylogenomics-in-the-subclass-rhodymeniophycidae
#20
Poh-Kheng Ng, Showe-Mei Lin, Phaik-Eem Lim, Li-Chia Liu, Chien-Ming Chen, Tun-Wen Pai
BACKGROUND: The chloroplast genome of Gracilaria firma was sequenced in view of its role as an economically important marine crop with wide industrial applications. To date, there are only 15 chloroplast genomes published for the Florideophyceae. Apart from presenting the complete chloroplast genome of G. firma, this study also assessed the utility of genome-scale data to address the phylogenetic relationships within the subclass Rhodymeniophycidae. The synteny and genome structure of the chloroplast genomes across the taxa of Eurhodophytina was also examined...
January 6, 2017: BMC Genomics
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