总的来说通过PCA我们可以分类植物对各种环境因素的不同反应:
(i)找到特定处理下植物样品OJIP曲线发生的特异性变化
(ii)筛选出发生显著变化的JIP-test荧光参数及其变化特征,可更好对植物样品光合机构发生的变化(伤害)进行定位分析,如PSⅡ供体侧/受体测或PSⅡ活性中心等。
(iii)我们还可以将JIP-test荧光数据与其他环境数据或生理参数进行聚类结合(Goltsev et al. 2012)。
(iv)此外Tyystjärvi等人应用PCA等人工智能方法分析不同类型光照(低光强、饱和脉冲、远红色等)激发的JIP-test荧光数据,可识别植物物种(Tyystjärvi et al. 1999; Keränen et al. 2003; Codrea et al. 2003;Kirova et al. 2009)。
(v)Kalaji等人利用JIP-test、主成分分析(PCA)和一种新的机器学习方法建立了一种无创检测和监测大田条件下油菜籽微量和大量营养素缺乏的方法(Kalaji et al. 2017)。
鉴于篇幅限制,我们将在下期文章中筛选数篇应用PCA方法分析JIP-test荧光数据具有代表性的文章进行详细介绍,期待您的关注,谢谢!
4.引用文献
[1] Appenroth, K.J., Stöckel, J., Srivastava, A.,Strasser, R.J., 2001.
Multiple effects of chromate on the photosyntheticapparatus of Spirodela
polyrhiza as probed by OJIP chlorophyll a fluorescencemeasurements.
Environ. Pollut. 115, 49–64.
[2] Bussotti F, Gerosa G, Digrado A, Pollastrini M, 2020.Selection of
chlorophyll fluorescence parameters as indicators of
photosyntheticefficiency in large scale plant ecological studies. Ecol
Indic 108: 105686.
[3] Bussotti, F., Strasser, R.J., Schaub, M., 2007.Photosynthetic
behavior of woody species under high ozone exposure probed withthe
JIP-test: a review. Environ. Pollut. 147, 430–437.
[4] Ceppi, M.G., Oukarroum, A., Cicek, N., Strasser,R.J., Schansker, G.,
2012. The IP amplitude of the fluorescence rise OJIP issensitive to
changes in the photosystem I content of leaves: a study on plantsexposed
to magnesium and sulfate deficiencies, drought stress and salt stress.
Physiol.Plant 144, 277–288.
[5] Chen, S.G., Xu, X.M., Dai, X.B., Yang, C.L., Qiang,S., 2007.
Identification of tenuazonic acid as a novel type of naturalphotosystem
II inhibitor binding in QB-site of Chlamydomonasreinhardtii. Biochim.
Biophys. Acta 1767, 306–318.
[6] Chen, S.G., Zhou, F.Y., Yin, C.Y., Strasser, R.J.,Qiang, S., Yang,
C.L., 2011. Application of fast chlorophyll a fluorescencekinetics to
probe action target of 3-acetyl-5-isopropyltetramic acid. Environ.Exp.
Bot. 71, 269–279.
[7] Christen, D., Schönmann, S., Jermini, M., Strasser,R.J., Défago, G.,
2007. Characterization and early detection of grapevine (Vitisvinifera)
stress responses to esca disease by in situ chlorophyllfluorescence and
comparison with drought stress. Environ. Exp. Bot. 60,504–514.
[8] Clark, A.J., Landolt, W., Bucher, J.B., Strasser,R.J., 2000. Beech
(Fagus sylvatica) response to ozone exposure assessedwith a chlorophyll a
fluorescence performance index. Environ. Pollut.109, 501–507.
[9] Codrea C, Aittokallio T, Keränen M et al(2003) Feature learning with
a genetic algorithm for fluorescencefingerprinting of plant species.
Pattern Recognit Lett 24:2663–2673.
[10] Demetriou, G., Neonaki, C., Navakoudis, E.,Kotzabasis, K., 2007.
Salt stress impact on the molecular structure andfunction of the
photosynthetic apparatus—the protective role of polyamines.
Biochim.Biophys. Acta 1767, 272–280.
[11] Frani M, Jambrovi A, Zduni Z, et al. Photosyntheticproperties of
maize hybrids under different environmental conditions probed bythe
chlorophyll a fluorescence[J]. Maydica, 2020, 64(3):M25.
[12] Galić V, Mazur M, Šimić D, Zdunić Z, Franić M, 2019.Plant biomass
in salt-stressed young maize plants can be modelled with
photosyntheticperformance. Photosynthetica 57: 9-19.
[13] Goltsev V, Zaharieva I, Chernev P et al (2012)Drought-induced
modifications of photosynthetic electron transport in intactleaves:
analysis and use of neural networks as a tool for a rapid
non-invasiveestimation. Biochim Biophys Acta-Bioenerg 1817:1490–1498.
[14] Gururani, M.A., Venkatesh, J., Ganesan, M.,Strasser, R.J., Han, Y.,
Kim, J.I., Lee, H.Y., Song, P.S., 2015. In vivoassessment of cold
tolerance through chlorophyll-a fluorescence in transgeniczoysiagrass
expressing mutant phytochrome A. PLoS One 10, e0127200.
[15] Hermans C, Smeyers M, Rodriguez RM, Eyletters M,Strasser RJ,
Delhaye JP (2003). Quality assessment of urban trees: Acomparative study
of physiological characterization, airborne imaging and onsite of
fluorescence monitoring by the OJIP-test. J Plant Physiol, 160:81–90.
[16] Hermans, C., Johnson, G.N., Strasser, R.J.,Verbruggen, N., 2004.
Physiological characterisation of magnesium deficiency insugar beet:
acclimation to low magnesium differentially affects photosystems Iand
II. Planta 220, 344–355.
[17] Hu, K., Govindjee, G., Tan, J., Xia, Q., Dai, Z. andGuo, Y.
Co-author and co-cited reference network analysis for
chlorophyllfluorescence research from 1991 to 2018. Photosynthetica,
2020, vol. 58,iss. 1, p. 110-124.
[18] Jiang CD, Gao HY, Zou Q (2003). Changes of donorand accepter side
in photosystem II complex induced by iron deficiency inattached soybean
and maize leaves. Photosynthetica, 41: 267–271.
[19] Jolliffe, I.T., 2002. Graphical representation ofdata using
principal components. In: Jolliffe, I.T. (Ed.), Principal
ComponentAnalysis, Springer Series in Statistics. Springer, New York,
pp. 78-110.
[20] Kalaji H M, BaBa W , Gediga K , et al. Chlorophyllfluorescence as a
tool for nutrient status identification in rapeseedplants[J].
Photosynthesis Research, 2017.
[21] Kalaji H M, Oukarroum A, Alexandrov V, et al.Identification of
nutrient deficiency in maize and tomato plants by in vivochlorophyll a
fluorescence measurements[J]. Plant Physiology &Biochemistry, 2014,
81:16-25.
[22] Kalaji, H.M., Carpentier, R., Allakhverdiev, S.L.,Bosa, K., 2012.
Fluorescence parameters as early indicators of light stress inbarley. J.
Photochem. Photobiol. B: Biol. 112, 1–6.
[23] Keränen M, Aro EM, Tyystjärvi E, Nevalainen O(2003) Automatic plant
identification with chlorophyll fluorescencefingerprinting. Precis
Agric 4:53–67.
[24] Kirova M, Ceppi G, Chernev P et al (2009)Using artificial neural
networks for plant taxonomic determination based onchlorophyll
fluorescence induction curves. Biotechnol Biotechnol Equip23:941–945.
[25] Krüger, G.H.J., Tsimilli-Michael, M., Strasser,R.J.,1997. Light
stress provokes plastic and elastic modifications instructureand
function of photosystem II in camellia leaves. Physiol. Plant.
101,265–277.
[26] Lazár, D., 2003. Chlorophyll a fluorescence riseinduced by high
light illumination of dark-adapted plant tissue studied bymeans of a
model of photosystem II and considering photosystem IIheterogeneity. J.
Theor. Biol. 220, 469–503.
[27] Legendre P, Legendre L (2012) Numerical ecology,3rd edn. Elsevier, Amsterdam.
[28] Li, X., Zhang, L., 2015. Endophytic infectionalleviates Pb2+ stress
effects on photosystem II functioning of Oryzasativa leaves. J. Hazard.
Mater. 295, 79–85.
[29] Lu, C.M., Zhang, J.H.,1999. Heat-induced multipleeffects on PSII in wheat Plants. J. Plant Physiol. 156, 259–265.
[30] Mathur, S., Allakhverdiew, S.I., Jajoo,A.,2011.Analysis of high
temperature stress on the dynamic of antenna size andreducing side
heterogeneity of photosystem II in wheat leaves (Triticumaestivum).
Biochim. Biophys. Acta 1807, 22–29.[31] Meinander, O., Somersalo, S.,
Holopainen, T.,Strasser, R.J., 1996. Scots pines after exposure to
elevated ozone and carbondioxide probed by reflectance spectra and
chlorophyll a fluorescencetransients. J. Plant Physiol. 148, 229–236.
[32] Misra, A.N., Srivastava, A., Strasser, R.J., 2001.Utilization of
fast chlorophyll a fluorescence technique in assessing thesalt/ion
sensitivity of mung bean and Brassica seedlings. J. Plant Physiol.158,
1173–1181.
[33] Nussbaum, S., Geissmann, M., Eggenberg, P.,Strasser, R.J., Fuhrer,
J., 2001. Ozone sensitivity in herbaceous species asassessed by direct
and modulated chlorophyll fluorescence techniques. J.Plant Physiol. 158,
757–766.
[34] Oukarroum, A., Madidi, S. E., Schansker, G.,Strasser, R.J., 2007.
Probing the responses of barley cultivars (Hordeumvulgare L.) by
chlorophyll a fluorescence OLKJIP under drought stress andre-watering.
Environ. Exp. Bot 60, 438–446.
[35] Oukarroum, A., Schansker, G., Strasser, R.J., 2009.Drought stress
effects on photosystem I content and photosystem IIthermotolerance
analyzed using Chl a fluorescence kinetics in barley varietiesdiffering
in their drought tolerance. Physiol. Plant 137, 188–199.
[36] Ouzounidou, G., Moustakas, M., Strasser, R.J.,1997. Sites of action
of copper in the photosynthetic apparatus of maizeleaves: kinetics
analysis of chlorophyll fluorescence, oxygen evolution,absorption
changes and thermal dissipation as monitored by photoacousticsignals.
Aust. J. Plant Physiol. 24, 81–90.
[37] Pollastrini, M., Desotgiu, R., Camin, F., Ziller,L., Gerosa, G.,
Marzuoli, R., Bussotti, F., 2014. Severe drought eventsincrease the
sensitivity to ozone on poplar clones. Environ. Exp. Bot.100, 94–104.
[38] Pontes. D, Ontes, M., Rodriguez, R. and Santiago,E.F. Letter to The
Editor. The energy flux theory celebrates 40 years: toward asystems
biology concept? Photosynthetica, 2019, vol. 57, iss. 2, p.521-522.
[39] Rivera-Becerril, F., Calantzis, C., Turnau, K.,Caussanel, J.,
Belimov, A. A., Gianinazzi,S., Strasser, R.J., Gianinazzi-Pearson,V.,
2002. Cadmium accumulation and buffering of cadmium-induced stress
byarbuscular mycorrhiza in three Pisum sativum L. genotypes. J. Exp.Bot.
53, 1177–1185.
[40] Roccotiello, E., Manfredi, A., Drava, G., Minganti,V., Mariotti,
M.G., Berta, G., Cornara, L., 2010. Zinc tolerance andaccumulation in
the ferns Polypodium cambricum L. and Pteris vittataL. Ecotoxicol.
Environ. Saf. 73, 1264–1271.
[41] Samborska IA, Alexandrov V, Sieczko L et al (2014)Artificial neural
networks and their application in biological and agriculturalresearch.
Sigpost Open Access J Nano Photo Bio Sciences 2:14–30.
[42] Schansker, G., Tóth, S.Z., Strasser, R.J., 2005.Methylviolegen and
dibromothymoquinone treatments of pea leaves reveal the roleof
photosystem I in the Chl a fluorescence rise OJIP. Biochim. Biophys.
Acta1706, 250–261.
[43] Sekhar, K.M., Rachapudi, V.S., Mudalkar, S., Reddy,A.R., 2014.
Persistent stimulation of photosynthesis in short rotation
coppicemulberry under elevated CO2 atmosphere. J. Photochem.
Photobiol.B: Biol. 137, 21–30.
[44] Srivastava, A., Guissé, B., Greppin, H., Strasser,R.J., 1997.
Regulation of antenna structure and transport in photosystem II of
Pisumsativum under elevated temperature probed by fast polyphasic
chlorophyll afluorescence transient: OKJIP. Biochim. Biophys. Acta 1320,
95–106.
[45] Srivastava, A., Jüttner, F., Strasser, R.J., 1998.Action of the
allelochemical, fischerellin A, on photosystem II. Biochim.Biophys. Acta
1364, 326–336.
[46] Srivastava, A., Strasser, R.J., Govindjee, 1995.Differential
effects of dimethylbenzoquinone and dichlorobenzoquinone onchlorophyll
fluorescence transient in spinach thylakoids. J. Photochem.Photobiol. B:
Biol. 31, 163–169.
[47] Stirbet A, Lazár D, Kromdijk J, Govindjee, 2018. Chlorophylla
fluorescence induction: Can just a one-second measurement be used to
quantifyabiotic stress responses? Photosynthetica 56: 86-104.
[48] Strasser BJ, Strasser RJ (1995). Measuring fastfluorescence
transients to address environmental questions: The JIP test. In:Mathis P
(eds). Photosynthesis: from Light to Biosphere. Dordrecht: KAPPress,
Vol 5: 977-980.
[49] Strasser RJ, Srivastava A, Tsimilli-Michael M(2000). The
fluorescence transient as a tool to characterize and
screenphotosynthetic samples. In: Yunus M, Pathre U, Mohanty P (eds).
ProbingPhotosynthesis: Mechanism, Regulationand Adaptation. London:
Taylor andFrancis Press, 445–483.
[50] Strasser RJ, Tsimill-Michael M, Srivastava A(2004). Analysis of the
chlorophyll a fluorescence transient. In: PapageorgiouG,
Govindjee(eds). Advances in Photosynthesis and Respiration.Netherlands:
KAP Press, 1–42.
[51] Strasser, B.J., 1997. Donor side capacity ofPhotosystem II probed
by chlorophyll a fluorescence transients. Photosynth.Res. 52, 147–155.
[52] Strasser, R.J., Tsimilli-Michael, M., Qiang, S.,Goltsev, V., 2010.
Simultaneous in vivo recording of prompt and delayedfluorescence and
820-nm reflection changes during drying and after rehydrationof the
resurrection plant Haberlea rhodopensis. Biochim. Biophys.
Acta1313–1326.
[53] Strauss, A.J., Krüger, G.H.J., Strasser, R.J., vanHeerden, P.D.R.,
2006. Ranking of dark chilling tolerance in soybean genotypesprobed by
the chlorophyll a fluorescence transient O-J-I-P. Environ. Exp.Bot. 56,
147–157.
[54] Strauss, A.J., Krüger, G.H.J., Strasser, R.J., vanHeerden, P.D.R.,
2007. The role of low soil temperature in the inhibition ofgrowth and
PSII function during dark chilling in soybean genotypes ofcontrasting
tolerance. Physiol. Plant 131, 89–105.
[55] Strivastava A, Strasser RJ (1996). Stress andstress management of
land plants during a regular day. J Plant Physiol,148: 445–455.
[56] Susplugas, S., Srivastava, A., Strasser, R.J.,2000. Changes in the
photosynthetic activities during several stages ofvegetative growth of
Spirodela polyrhiza: effect of chromate. J. PlantPhysiol. 157, 503–512.
[57] Tóth, S.Z., Schansker, G., Garab, G., Strasser,R.J., 2007.
Photosynthetic electron transport activity in heat-treated barleyleaves:
the role of internal alternative electron donors to photosystem II.
Biochim.Biophys. Acta 1767, 295–305.
[58] Tóth, S.Z., Schansker, G., Kissimon, J., Kovacs,L., Garab, G.,
Strasser, R.J., 2005b. Biophysical studies of photosystemII-related
recovery processes after a heat pulse in barley seedlings
(Hordeumvulgare L.). J. Plant Physiol. 162, 181–194.
[59] Tóth, S.Z., Schansker, G., Strasser, R.J., 2005a.In intact leaves,
the maximum fluorescence level (FM) isindependent of the redox state of
the plastoquinone pool: a DCMU-inhibitionstudy. Biochim. Biophys. Acta
1708, 275–282.
[60] Tsimilli-Michael, M., Eggenberg, P., Biro, B.,Köves-Pechy, K.,
Vörös, I., Strasser, R.J., 2000. Synergistic and antagonisticeffects of
arbuscular mycorrhizal fungi and Azospirillum and
Rhizobiumnitrogen-fixers on the photosynthetic activity of alfalfa,
probed by thepolyphasic chlorophyll a fluorescence transient O-J-I-P.
Appl. Soil Ecol.15, 169–182.
[61] Tyystjärvi E, Koski A, Keränen M, Nevalainen O(1999) The Kautsky curve is a built-in barcode. Biophys J 77:1159–1167.
[62] van Heerden PDR, Strasser RJ, Krüger GHJ (2004).Reduction of dark
chilling stress in N 2 -fixing soybean by nitrate asindicated by
chlorophyll a fluorescence kinetics. Physiol Plant, 121:239–249.
[63] van Heerden PDR, Tsimilli-Michael M, Krüger GHJ,Strasser RJ (2003).
Dark chilling effects on soybean genotypes duringvegetative
development: parallel studies of CO2 assimilation,chlorophyll a
fluorescence kinetics O-J-I-P and nitrogen fixation. PhysiolPlant, 117:
476–491.
[64] Xia, J.R., Li, Y.J., Zou, D.H., 2004. Effects ofsalinity stress on
PSII in Ulva lactuca as probed by chlorophyll fluorescencemeasurements.
Aquat. Bot. 80, 129–137.
[65] Xiang, M.M., Chen, S.G., Wang, L.S., Dong, Z.Y.,Huang, J.H., Zhang,
Y.X., Strasser, R.J., 2013. Effect of vulculic acidproduced by Nimbya
alternantherae on the photosynthetic apparatus of
Alternanthera.philoxeroides. Plant Physiol. Biochem 65, 81–88.
[66] Yadavalli, V., Neelam, S., Rao, A.S.V.C., Reddy,A.R., Subramanyam,
R., 2012. Differential degradation of photosystem I subunitsunder iron
deficiency in rice. J. Plant Physiol. 169, 753–759.
本文内PCA介绍部分内容及图4a/b/c源自CSDN博主「qian99」原创文章
原文链接:https://blog.csdn.net/qian99/java/article/details/105180110