|
Ainsworth
E A. 2018. Photosynthesis. In: Hatfield J L, Sivakumar M V K, Prueger J H,
eds., Agroclimatology. Wiley, Madison, USA. pp. 129–151.
Anders S,
Pyl P T, Huber W. 2015. HTSeq - A python framework to work with high-throughput
sequencing data. Bioinformatics, 31, 166–169.
Ávila E,
Herrera A, Tezara W. 2014. Contribution of stem CO2 fixation to
whole-plant carbon balance in nonsucculent species. Photosynthetica, 52,
3–15.
Ávila-Lovera
E, Garcillán P P. 2021. Phylogenetic signal and climatic niche of stem
photosynthesis in the mediterranean and desert regions of California and Baja
California Peninsula. American Journal of Botany, 108,
334–345.
Ávila-Lovera
E, Zerpa A J, Santiago L S. 2017. Stem photosynthesis and hydraulics are
coordinated in desert plant species. New Phytologist, 216,
1119–1129.
Brown N J,
Palmer B G, Stanley S, Hajaji H, Janacek S H, Astley H M, Parsley K, Kajala K,
Quick W P, Trenkamp S, Fernie A R, Maurino V G, Hibberd J M. 2010. C4 acid decarboxylases required for C4 photosynthesis are active in the
mid-vein of the C3 species Arabidopsis thaliana, and
are important in sugar and amino acid metabolism. The Plant Journal, 61, 122–133.
Chang Y C,
Walling L L. 1992. Chlorophyll a/b-binding protein genes are
differentially expressed during soybean development. Plant Molecular Biology, 19, 217–230.
Dann M,
Leister D. 2017. Enhancing (crop) plant photosynthesis by introducing novel
genetic diversity. Philosophical Transactions of the Royal Society, 372, 20160380.
Day M D,
Clements D R, Gile C, Senaratne W K A D, Shen S, Weston L A, Zhang F. 2016.
Biology and Impacts of Pacific Islands Invasive Species. 13. Mikania micrantha Kunth (Asteraceae). Pacific Science, 70, 257–285.
Deng X.
2010. Morphological and physiological plasticity responding to different light
environments of the invasive plant, Mikania micrantha H.B.Kunth. Ecology and Environment, 19, 1170–1175. (in Chinese)
Deng Y,
Kashtoh H, Wang Q, Zhen G, Li Q, Tang L, Gao H, Zhang C, Qin L, Su M, Li F,
Huang X, Wang Y, Xie Q, Clarke O B, Hendrickson W A, Chen Y. 2021. Structure
and activity of SLAC1 channels for stomatal signaling in leaves. Proceedings of the National Academy of Sciences of
the United States of America, 118, e2015151118.
Edgar R C.
2004. MUSCLE, multiple sequence alignment with high accuracy and high
throughput. Nucleic Acids Research, 32, 1792–1797.
Ehleringer
J, Pearcy R W. 1983. Variation in quantum yield for CO2 uptake among
C3 and C4 plants. Plant Physiology, 73,
555–559.
Emms D M,
Kelly S. 2015. OrthoFinder, solving fundamental biases in whole genome
comparisons dramatically improves orthogroup inference accuracy. Genome Biology, 16, 157.
Fariduddin
Q, Hayat S, Ali B, Ahmad A. 2006. Effect of 28-homobrassinolide on the nitrate
reductase, carbonic anhydrase activities and net photosynthetic rate in Vigna radiata. Acta Botanica Croatica, 65, 19–23.
Fracheboud
Y. 2002. Identification of quantitative trait loci for cold-tolerance of
photosynthesis in maize (Zea mays L.). Journal of Experimental Botany, 53, 1967–1977.
Gombos Z,
Wada H, Murata N. 1994. The recovery of photosynthesis from low-temperature
photoinhibition is accelerated by the unsaturation of membrane lipids, a
mechanism of chilling tolerance. Proceedings of the National Academy of Sciences of the United States of America, 91, 8787–8791.
Goulard F,
Lüning K, Jacobsen S. 2004. Circadian rhythm of photosynthesis and concurrent
oscillations of transcript abundance of photosynthetic genes in the marine red
alga Grateloupia turuturu. European Journal of Phycology, 39, 431–437.
Guo W, Liu
Y, Ng W L, Liao P C, Huang B H, Li W, Li C, Shi X, Huang Y. 2018. Comparative
transcriptome analysis of the invasive weed Mikania micrantha with its native congeners provides insights into genetic basis underlying
successful invasion. BMC Genomics, 19, 392.
Hasegawa
K, Yukawa Y, Sugita M, Sugiura M. 2002. Organization and transcription of the
gene family encoding chlorophyll a/b-binding proteins in Nicotiana sylvestris. Gene, 289, 161–168.
Hashimoto
M, Negi J, Young J, Israelsson M, Schroeder J I, Iba K. 2006. Arabidopsis HT1 kinase controls stomatal movements in response to CO2. Nature Cell Biology, 8, 391–397.
Heyduk K,
Moreno-Villena J J, Gilman I S, Christin P A, Edwards E J. 2019. The genetics
of convergent evolution, insights from plant photosynthesis. Nature Reviews Genetics, 20, 485–493.
Hibberd J
M, Quick W P. 2002. Characteristics of C4 photosynthesis in stems
and petioles of C3 owering plants. Nature, 415,
451–454.
Hiratsuka
S, Suzuki M, Nishimura H, Nada K. 2015. Fruit photosynthesis in Satsuma mandarin. Plant Science, 241, 65–69.
Hu S P,
Zhou Y, Zhang L, Zhu X D, Li L, Luo L J, Liu G L, Zhou Q M. 2009. Correlation
and quantitative trait loci analyses of total chlorophyll content and
photosynthetic rate of rice (Oryza sativa) under water stress and
well-watered Conditions. Journal of Integrative Plant Biology, 51, 879–888.
Hussain A,
Nazir F, Fariduddin Q. 2019. 24-Epibrassinolide and spermidine alleviate Mn
stress via the modulation of root morphology, stomatal behavior, photosynthetic
attributes and antioxidant defense in Brassica juncea. Physiology and Molecular Biology of Plants, 25,
905–919.
Hutin C,
Nussaume L, Moise N, Moya I, Kloppstech K, Havaux M. 2003. Early light-induced
proteins protect Arabidopsis from photooxidative stress. Proceedings of the National Academy of Sciences of
the United States of America, 100, 4921–4926.
Jung H S,
Niyogi K K. 2009. Quantitative genetic analysis of thermal dissipation in Arabidopsis. Plant Physiology, 150, 977–986.
Keren N,
Ohad I. 1998. State transition and photoinhibition. In: Advances in Photosynthesis and Respiration. Springer, Dordrecht. pp.
569–596.
Keren N,
Ohkawa H, Welsh E A, Liberton M, Pakrasi H B. 2005. Psb29, a conserved 22-kD
protein, functions in the biogenesis of photosystem II complexes in Synechocystis and Arabidopsis. Plant Cell, 17, 2768–2781.
Kim D,
Paggi J M, Park C, Bennett C, Salzberg S L. 2019. Graph-based genome alignment
and genotyping with HISAT2 and HISAT-genotype. Nature Biotechnology, 37, 907–915.
Kinoshita
T, Doi M, Suetsugu N, Kagawa T, Wada M, Shimazaki K. 2001. Phot1 and phot2
mediate blue light regulation of stomatal opening. Nature, 414,
656–660.
Kitaya Y,
Yabuki K, Kiyota M, Tani A, Hirano T, Aiga I. 2002. Gas exchange and oxygen concentration
in pneumatophores and prop roots of four mangrove species. Trees, 16,
155–158.
Koyama K,
Kikuzawa K. 2009. Is whole-plant photosynthetic rate proportional to leaf area?
A test of scalings and a logistic equation by leaf demography census. American Naturalist, 5, 640–649.
Kusumi K,
Hashimura A, Yamamoto Y, Negi J, Iba K. 2017. Contribution of the S-type anion
channel SLAC1 to stomatal control and its dependence on developmental stage in
rice. Plant and Cell Physiology, 58,
2085–2094.
Li H,
Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, Marth G, Abecasis G, Durbin
R. 2009. The sequence alignment/Map format and SAMtools. Bioinformatics, 25, 2078–2079.
Li H, Tong
Y, Li B, Jing R, Lu C, Li Z. 2010. Genetic analysis of tolerance to photo-oxidative
stress induced by high light in winter wheat (Triticum aestivum L.). Journal of Genetics and Genomics, 37,
399–412.
Liu B, Yan
J, Li W, Yin L, Li P, Yu H, Xing L, Cai M, Wang H, Zhao M, Zheng J, Sun F, Wang
Z, Jiang Z, Ou Q, Li S, Qu L, Zhang Q, Zheng Y, Qiao X, et al. 2020. Mikania micrantha genome provides insights into the
molecular mechanism of rapid growth. Nature Communications, 11,
340.
Locke A M,
Slattery R A, Ort D R. 2018. Field‐grown soybean transcriptome shows diurnal
patterns in photosynthesis‐related processes. Plant Direct, 2,
e00099.
Love M I,
Huber W, Anders S. 2014. Moderated estimation of fold change and dispersion for
RNA-seq data with DESeq2. Genome Biology, 15, 550.
Lowe S,
Browne M, Boudjelas S, Poorter M. 2000. 100 of the World’s Worst Invasive
Alien Species: A Selection from the Global Invasive Species Database.
The International Union for Conservation of Nature (IUCN)/The Species Survival
Commission (SSC), Auckland. p. 12.
Ma Y,
Szostkiewicz I, Korte A, Moes D, Yang Y, Christmann A, Grill E. 2009.
Regulators of PP2C phosphatase activity function as abscisic acid sensors. Science, 324, 1064–1068.
Macanawai
A R, Day M D, Tumaneng-Diete T, Adkins S W. 2012. Impact of Mikania micrantha on crop production systems in Viti Levu, Fiji. Pakistan Journal of Weed Science Research, 18, 357–365.
Mallmann
J, Heckmann D, Bräutigam A, Lercher M J, Weber A P, Westhoff P, Gowik U. 2014.
The role of photorespiration during the evolution of C4 photosynthesis in the genus Flaveria. eLife, 3, e02478.
Martino-Catt
S, Ort D R. 1992. Low temperature interrupts circadian regulation of
transcriptional activity in chilling-sensitive plants. Proceedings of the National Academy of Sciences of the United
States of America, 89, 3731–3735.
Matrosova
A, Bogireddi H, Mateo-Peñas A, Hashimoto-Sugimoto M, Iba K, Schroeder J I,
Israelsson-Nordström M. 2015. The HT1 protein kinase is essential for red
light-induced stomatal opening and genetically interacts with OST1 in red light
and CO2-induced stomatal movement responses. New Phytologist, 208, 1126–1137.
Meyer H,
Thienel U, Piechulla B. 1989. Molecular characterization of the
diurnal/circadian expression of the chlorophyll a/b-binding proteins in
leaves of tomato and other dicotyledonous and monocotyledonous plant species. Planta, 180, 5–15.
Murata N,
Nishiyama Y. 2018. ATP is a driving force in the repair of photosystem II
during photoinhibition. Plant, Cell and Environment, 41, 285–299.
Murata N,
Takahashi S, Nishiyama Y, Allakhverdiev S I. 2007. Photoinhibition of
photosystem II under environmental stress. Biochimica et Biophysica Acta, 1767, 414–421.
Mustilli A
C, Merlot S, Vavasseur A, Fenzi F, Giraudat J. 2002. Arabidopsis OST1 protein
kinase mediates the regulation of stomatal aperture by abscisic acid and acts
upstream of reactive oxygen species production. Plant Cell, 14,
3089–3099.
Nakahira
Y, Baba K, Yoneda A, Shiina T, Toyoshima Y. 1998. Circadian-regulated
transcription of the psbD light-responsive promoter in wheat chloroplasts. Plant Physiology, 118, 1079–1088.
Negi J,
Matsuda O, Nagasawa T, Oba Y, Takahashi H, Kawai-Yamada M, Uchimiya H, Hashimoto
M, Iba K. 2008. CO2 regulator SLAC1 and its homologues are essential
for anion homeostasis in plant cells. Nature, 452, 483–486.
Noordally
Z B, Ishii K, Atkins K A, Wetherill S J, Kusakina J, Walton E J, Kato, M, Azuma
M, Tanaka K, Hanaoka M, Dodd A N. 2013. Circadian control of chloroplast
transcription by a nuclear-encoded timing signal. Science, 6125,
1316–1319.
Park S Y,
Fung P, Nishimura N, Jensen D R, Fujii H, Zhao Y, Lumba S, Santiago J,
Rodrigues A, Chow T F, Alfred S E, Bonetta D, Finkelstein R, Provart N J,
Desveaux D, Rodriguez P L, McCourt P, Zhu J K, Schroeder J I, Volkman B F, et al. 2009. Abscisic acid inhibits PP2Cs via the PYR/PYL family of ABA-binding
START proteins. Science, 324, 1068–1071.
Perchorowicz
J T, Raynes D A, Jensen R G. 1981. Light limitation of photosynthesis and
activation of ribulose bisphosphate carboxylase in wheat seedlings. Proceedings of the National Academy of Sciences of
the United States of America, 78, 2985–2989.
Rangan P,
Wankhede D P, Subramani R, Chinnusamy V, Malik S K, Baig M J, Singh K, Henry R.
2022. Evolution of an intermediate C4 photosynthesis in the
non-foliar tissues of the Poaceae. Photosynthesis Research, 153,
125–134.
Roelfsema
M R G, Hanstein S, Felle H H, Hedrich R. 2002. CO2 provides an
intermediate link in the red light response of guard cells. Plant Journal, 32, 65–75.
Romanowska
E, Powikrowska M, Zienkiewicz M, Pokorska B. 2008. High light induced
accumulation of two isoforms of the CF1 α-subunit in mesophyll and bundle
sheath chloroplasts of C4 plants. Acta Biochimica Polonica, 55, 175–182.
Sakoda K,
Yamori W, Groszmann M, Evans J R. 2021. Stomatal, mesophyll conductance, and
biochemical limitations to photosynthesis during induction. Plant Physiology, 185, 146–160.
Skillman J
B. 2008. Quantum yield variation across the three pathways of photosynthesis,
not yet out of the dark. Journal of Experimental Botany, 59, 1647–1661.
Sun W, Ma
N, Huang H, Wei J, Ma S, Liu H, Zhang S, Zhang Z, Sui X, Li X. 2021.
Photosynthetic contribution and characteristics of cucumber stems and petioles. BMC Plant Biology, 21, 454.
Suyama M,
Torrents D, Bork P. 2006. PAL2NAL, robust conversion of protein sequence
alignments into the corresponding codon alignments. Nucleic Acids Research, 34, W609–W612.
von Sydow
L, Schwenkert S, Meurer J, Funk C, Mamedov F, Schröder W P. 2016. The PsbY
protein of Arabidopsis Photosystem II is important for the redox control
of cytochrome b559. Biochimica et Biophysica Acta, 1857, 1524–1533.
Tinoco-Ojanguren
C. 2008. Diurnal and seasonal patterns of gas exchange and carbon gain
contribution of leaves and stems of Justicia californica in the
Sonoran Desert. Journal of Arid Environments, 72,
127–140.
Tullberg
A, Alexciev K, Pfannschmidt T, Allen J F. 2000. Photosynthetic electron flow
regulates transcription of the psaB gene in pea (Pisum sativum L.)
chloroplasts through the redox state of the plastoquinone pool. Plant and Cell Physiology, 41, 1045–1054.
Tyystjärvi
E, Aro E M. 1996. The rate constant of photoinhibition, measured in
lincomycin-treated leaves, is directly proportional to light intensity. Proceedings of the National Academy of Sciences of
the United States of America, 93, 2213–2218.
Ueno O,
Fuchikami Y. 2020. Structure and photosynthetic metabolism in green prop roots
of C4 sorghum. Plant Production Science, 23,
182–190.
Wang F,
Sun H, Rong L, Li Z, An T, Hu W, Ye Z. 2021. Genotypic-dependent alternation in
D1 protein turnover and PSII repair cycle in psf mutant rice (Oryza sativa L.), as well as its relation to light-induced leaf senescence. Plant Growth Regulation, 95, 121–136.
Wasilewska-Dębowska
W, Zienkiewicz M, Drozak A. 2022. How light reactions of photosynthesis in C4 plants are optimized and protected under high light conditions. International Journal of Molecular Sciences, 23, 3626.
Watillon
B, Kettmann R, Boxus P, Burny A. 1993. Developmental and circadian pattern of
rubisco activase mRNA accumulation in apple plants. Plant Molecular Biology, 23, 501–509.
Wen D, Ye
W, Feng H, Cai C. 2000. Comparison of basic photosynthetic characteristics
between exotic invader weed Mikania micrantha and its companion
species. Journal of Tropical and Subtropical Botany, 8, 139–146.
Xu D H,
Fang X W, Su P X, Wang G. 2012. Ecophysiological responses of Caragana korshinskii Kom. under extreme drought stress, Leaf abscission and stem survives. Photosynthetica, 50, 541–548.
Yamori W,
Evans J R, Von Caemmerer S. 2010. Effects of growth and measurement light
intensities on temperature dependence of CO2 assimilation rate in
tobacco leaves. Plant, Cell and Environment, 33,
332–343.
Yang Z.
2005. Bayes empirical bayes inference of amino acid sites under positive
selection. Molecular Biology and Evolution, 22,
1107–1118.
Yang Z.
2007. PAML 4, phylogenetic analysis by maximum likelihood. Molecular Biology and Evolution, 24, 1586–1591.
Zhang N,
Kallis R P, Ewy R G, Portis A R. 2002. Light modulation of Rubisco in Arabidopsis requires a capacity for redox regulation of the larger Rubisco activase
isoform. Proceedings of the National Academy of Sciences of the United States of America, 99,
3330–3334.
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