Plant spectral imaging and phenotyping laboratory

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Information People Publications

Plant spectral imaging and phenotyping laboratory (formerly Spectromics laboratory) forms together with the University of Helsinki the Finnish National Plant phenotyping Infrastructure (NaPPI), that belongs to the Biocenter Finland. Laboratory is part of the UEF Center for Photonics Sciences and Research Council of Finland’s Flagship on Photonics Research and Innovation (PREIN).

Cooperation

National Plant Phenotyping Infrastructure (NaPPI)

Plant ecophysiology and phenotyping
Center for Photonics Sciences
Plant Ecology
Forest disturbance ecology

Keywords

plant phenotyping spectral imaging

Personnel

Markku Keinänen

Research Manager

Department of Environmental and Biological Sciences, Faculty of Science, Forestry and Technology
Sari Kontunen-Soppela

University Lecturer

Department of Environmental and Biological Sciences, Faculty of Science, Forestry and Technology
Leah Marie Martin

Doctoral Researcher

Department of Environmental and Biological Sciences, Faculty of Science, Forestry and Technology

Publications

30 items

Observing accelerated chemical colour change in aspen and birch wood using hyperspectral imaging and spectrophotometry
Lampela, Joona; Keinänen, Markku; Haapala, Antti; Akinyemi, Olusegun; Möttönen, Veikko, 2025, European journal of wood and wood products, 83, 5, 159. A1 Journal article (refereed), original research
Short-term effects of low-intensity surface fires on dissolved organic matter from boreal forest soils
Rebiffé, Mathilde; Kohl, Lukas; Köster, Egle; Keinänen, Markku; Berninger, Frank; Köster, Kajar, 2025, Journal of soils and sediments, 25, 11, 3225-3244. A1 Journal article (refereed), original research
Advancing hyperspectral imaging techniques for root systems: a new pipeline for macro- and microscale image acquisition and classification
Faehn, Corine; Konert, Grzegorz; Keinänen, Markku; Karppinen, Katja; Krause, Kirsten, 2024, Plant methods, 20, 1, 171. A1 Journal article (refereed), original research
Day-to-day variation in chlorophyll fluorescence parameters of northern and southern silver birch in a common garden
Akinyemi, Olusegun Olaitan; Cepl, Jaroslav; Keski-Saari, Sarita; Stejskal, Jan; Tomaskova, Ivana; Keinaenen, Markku; Kontunen-Soppela, Sari, 2024, Journal of forestry research, 36, 1, 16. A1 Journal article (refereed), original research
Hyperspectral imaging for identification of irregular-shaped microplastics in water
Gebejes, A; Hrovat, B; Semenov, D; Kanyathare, B; Itkonen, T; Keinänen, M; Koistinen, A; Peiponen, K-E; Roussey, M, 2024, Science of the total environment, 944, 173811. A1 Journal article (refereed), original research
Derivative-based time-adjusted analysis of diurnal and within-tree variation in the OJIP fluorescence transient of silver birch
Akinyemi, Olusegun Olaitan; Čepl, Jaroslav; Keski-Saari, Sarita; Tomášková, Ivana; Stejskal, Jan; Kontunen-Soppela, Sari; Keinänen, Markku, 2023, Photosynthesis research, 157, 2-3, 133-146. A1 Journal article (refereed), original research
Detection and identification of microplastics directly in water by hyperspectral imaging
Gebejes, Ana; Kaynathare, Boniphace; Hrovat, Blaž; Semenov, Dmitri; Itkonen, Tommi; Keinänen, Markku; Koistinen, Arto; Peiponen, Kai-Erik; Roussey, Matthieu, 2023, 09002. A4 Conference proceedings
Making the Genotypic Variation Visible: Hyperspectral Phenotyping in Scots Pine Seedlings
Stejskal, Jan; Čepl, Jaroslav; Neuwirthová, Eva; Akinyemi, Olusegun Olaitan; Chuchlík, Jiří; Provazník, Daniel; Keinänen, Markku; Campbell, Petya; Albrechtová, Jana; Lstibůrek, Milan; Lhotáková, Zuzana, 2023, Plant phenomics, 5, 0111. A1 Journal article (refereed), original research
Polar day syndrome: Differences in growth, photosynthetic traits and sink-size patterns between northern and southern Finnish silver birch (Betula pendula Roth) provenances in native and non-native photoperiods
Tenkanen, Antti; Keinänen, Markku; Oksanen, Elina; Keski-Saari, Sarita; Kontunen-Soppela, Sari, 2022, Tree physiology, 43, 1, 16-30. A1 Journal article (refereed), original research
Assessment of a portable UV-Vis spectrophotometer's performance in remote areas: Stream water DOC, Fe content and spectral data
Zhu, Xudan; Chen, Liang; Pumpanen, Jukka; Keinänen, Markku; Laudon, Hjalmar; Ojala, Anne; Palviainen, Marjo; Kiirikki, Mikko; Neitola, Kimmo; Berninger, Frank, 2021, Data in brief, 35, 106747. A1 Journal article (refereed), original research
Mass Spectrometry Imaging of Arabidopsis thaliana Leaves at the Single-Cell Level by Infrared Laser Ablation Atmospheric Pressure Photoionization (LAAPPI)
Hieta, Juha-Pekka; Sipari, Nina; Räikkönen, Heikki; Keinänen, Markku; Kostiainen, Risto, 2021, Journal of the american society for mass spectrometry, 32, 12, 2895-2903. A1 Journal article (refereed), original research
Assessment of a portable UV-Vis spectrophotometer's performance for stream water DOC and Fe content monitoring in remote areas
Zhu, Xudan; Chen, Liang; Pumpanen, Jukka; Keinänen, Markku; Laudon, Hjalmar; Ojala, Anne; Palviainen, Marjo; Kiirikki, Mikko; Neitola, Kimmo; Berninger, Frank, 2020, Talanta, 2021; 224, 121919. A1 Journal article (refereed), original research
Differences in growth and gas exchange between southern and northern provenances of silver birch (Betula pendula Roth) in northern Europe
Tenkanen, A; Keski-Saari, S; Salojärvi, J; Oksanen, E; Keinänen, M; Kontunen-Soppela, S, 2020, Tree physiology, 40, 2, 198-214. A1 Journal article (refereed), original research
Identification of peat type and humification by laboratory VNIR/SWIR hyperspectral imaging of peat profiles with focus on fen-bog transition in aapa mires
Granlund, L; Keinänen, M; Tahvanainen, T, 2020, Plant and soil, 2021; 460, 1-2, 667-686. A1 Journal article (refereed), original research
Spectral Reflectance in Silver Birch Genotypes from Three Provenances in Finland
Deepak, Maya; Keski-Saari, Sarita; Fauch, Laure; Granlund, Lars; Oksanen, Elina; Keinänen, Markku, 2020, Remote sensing, 12, 17, 2677. A1 Journal article (refereed), original research
Strategy by latitude? Higher photosynthetic capacity and root mass fraction in northern than southern silver birch (Betula pendula Roth) in uniform growing conditions
Tenkanen, Antti; Suprun, Sergei; Oksanen, Elina; Keinänen, Markku; Keski-Saari, Sarita; Kontunen-Soppela, Sari, 2020, Tree physiology, 2021; 41, 6, 974-991. A1 Journal article (refereed), original research
Fotoniikasta valoa Suomen hyvinvointiin: Selvitys alan vaikuttavuudesta ja kasvunäkymistä
Aalto, Timo; Ailisto, Heikki; Antila, Jarkko; Eklin, Tero; Haapala, Antti; Herrala, Esko; Heräjärvi, Henrik; Hirvi, Timo; Hänninen, Pekka; Jokinen, Kimmo; Keinänen, Markku; Kola, Kari; Korppi-Tommola, Jouko; Kutila, Matti; Lappalainen, Reijo; Laurila, Toni; Luukanen, Arttu; Kauranen, Martti; Oksanen, Elina; Purmonen, Juha; Räisänen, Antti; Saarinen, Jyrki; Salmelin, Eero; Salminen, Antti; Stenberg, Petri; Tokola, Timo; Turtiainen, Heikki; Uusimaa, Petteri; Vahimaa, Pasi; Vastaranta, Mikko; Visa, 2019. D4 Published development or research report or study
Kohti virtuaalisuutta kasvibiologian opetuksessa
Oivanen, Karri; Granlund, Lars; Kontunen-Soppela, Sari; Leppänen, Kimmo; Keski-Saari, Sarita; Keinänen, Markku, 2019, Natura, 3, 12-14. D1 Article in a trade journal
Leaf Canopy Layers Affect Spectral Reflectance in Silver Birch
Deepak, Maya; Keski-Saari, Sarita; Fauch, Laure; Granlund, Lars; Oksanen, Elina; Keinänen, Markku, 2019, Remote sensing, 11, 24, 2884. A1 Journal article (refereed), original research
Narrowband-autofluorescence imaging for bone analysis
Fauch, Laure; Palander, Anni; Dekker, Hannah; Schulten, Engelbert A J M; Koistinen, Arto; Kullaa, Arja; Keinänen, Markku, 2019, Biomedical optics express, 10, 5, 2367-2382. A1 Journal article (refereed), original research
Automated image analysis tool to measure microbial growth on solid cultures
Ancin-Murguzur, Fransisco Javier; Barbero-López, Aitor; Kontunen-Soppela, Sari; Haapala, Antti, 2018, Computers and electronics in agriculture, 151, 426-430. A1 Journal article (refereed), original research
Genotype- and provenance-related variation in the leaf surface secondary metabolites of silver birch
Deepak, Maya; Lihavainen, Jenna; Keski-Saari, Sarita; Kontunen-Soppela, Sari; Salojärvi, Jarkko; Tenkanen, Antti; Heimonen, Kaisa; Oksanen, Elina; Keinänen, Markku, 2018, Canadian journal of forest research-revue canadienne de recherche forestiere, 48, 5, 494-505. A1 Journal article (refereed), original research
Imaging lichen water content with visible to mid-wave infrared (400 - 5500 nm) spectroscopy
Granlund, Lars; Keski-Saari, Sarita; Kumpula, Timo; Oksanen, Elina; Keinänen, Markku, 2018, Remote sensing of environment, 216, 301-310. A1 Journal article (refereed), original research
Intrapopulation genotypic variation in leaf litter chemistry does not control microbial abundance and litter mass loss in silver birch, Betula pendula
Silfver, Tarja; Kontro, Merja; Paaso, Ulla; Karvinen, Heini; Keski-Saari, Sarita; Keinänen, Markku; Rousi, Matti; Mikola, Juha, 2018, Plant and soil, 426, 1-2, 253-266. A1 Journal article (refereed), original research
Nordic research infrastructures for plant phenotyping
Alexandersson, Erik; Keinänen, Markku; Chawade, Aakash; Himanen, Kristiina, 2018, Agricultural and food science, 27, 1, 7-16. A2 Review article, Literature review, Systematic review
Transcriptional effects of cadmium on iron homeostasis differ in calamine accessions of Noccaea caerulescens
Halimaa, P; Blande, D; Baltzi, E; Aarts, MGM; Granlund, L; Keinänen, M; Kärenlampi, SO; Kozhevnikova, AD; Peräniemi, S; Schat, H; Seregin, IV; Tuomainen, M; Tervahauta, AI, 2018, Plant journal, 2019; 97, 2, 306-320. A1 Journal article (refereed), original research
Intrapopulation Genotypic Variation of Foliar Secondary Chemistry during Leaf Senescence and Litter Decomposition in Silver Birch (Betula pendula)
Paaso Ulla, Keski-Saari Sarita, Keinänen Markku, Karvinen Heini, Silfver Tarja, Rousi Matti, Mikola Juha, 2017, Frontiers in plant science, 8, 1074. A1 Journal article (refereed), original research
Low vapor pressure deficit reduces glandular trichome density and modifies the chemical composition of cuticular waxes in silver birch leaves
Lihavainen Jenna, Ahonen Viivi, Keski-Saari Sarita, Sõber Anu, Oksanen Elina, Keinänen Markku, 2017, Tree physiology, 37, 9, 1166-1181. A1 Journal article (refereed), original research
Thermal and hyperspectral imaging for Norway spruce (Picea abies) seeds screening
Dumont Jennifer, Hirvonen Tapani, Heikkinen Ville, Mistretta Maxime, Granlund Lars, Himanen Katri, Fauch Laure, Porali Ilkka, Hiltunen Jouni, Keski-Saari Sarita, Nygren Markku, Oksanen Elina, Hauta-Kasari Markku, Keinänen Markku, 2015, Computers and electronics in agriculture, 116, 118-124. A1 Journal article (refereed), original research
Natural Vision Data File Format as a New Spectral Image Format for Biological Applications
Sakamoto Joji, Dumont Jennifer, Fauch Laure, Keski-Saari Sarita, Granlund Lars, Porali Ilkka, Orava Joni, Hiltunen Jouni, Oksanen Elina, Keinänen Markku, Hauta-Kasari Markku, 2014, Lecture notes in computer science, 8509, 124-132. A1 Journal article (refereed), original research

Refine your search

Plant spectral imaging and phenotyping laboratory

Cooperation

Keywords

Personnel

Markku Keinänen

Sari Kontunen-Soppela

Leah Marie Martin

Observing accelerated chemical colour change in aspen and birch wood using hyperspectral imaging and spectrophotometry

Short-term effects of low-intensity surface fires on dissolved organic matter from boreal forest soils

Advancing hyperspectral imaging techniques for root systems: a new pipeline for macro- and microscale image acquisition and classification

Day-to-day variation in chlorophyll fluorescence parameters of northern and southern silver birch in a common garden

Hyperspectral imaging for identification of irregular-shaped microplastics in water

Derivative-based time-adjusted analysis of diurnal and within-tree variation in the OJIP fluorescence transient of silver birch

Detection and identification of microplastics directly in water by hyperspectral imaging

Making the Genotypic Variation Visible: Hyperspectral Phenotyping in Scots Pine Seedlings

Polar day syndrome: Differences in growth, photosynthetic traits and sink-size patterns between northern and southern Finnish silver birch (Betula pendula Roth) provenances in native and non-native photoperiods

Assessment of a portable UV-Vis spectrophotometer's performance in remote areas: Stream water DOC, Fe content and spectral data

Mass Spectrometry Imaging of Arabidopsis thaliana Leaves at the Single-Cell Level by Infrared Laser Ablation Atmospheric Pressure Photoionization (LAAPPI)

Assessment of a portable UV-Vis spectrophotometer's performance for stream water DOC and Fe content monitoring in remote areas

Differences in growth and gas exchange between southern and northern provenances of silver birch (Betula pendula Roth) in northern Europe

Identification of peat type and humification by laboratory VNIR/SWIR hyperspectral imaging of peat profiles with focus on fen-bog transition in aapa mires

Spectral Reflectance in Silver Birch Genotypes from Three Provenances in Finland

Strategy by latitude? Higher photosynthetic capacity and root mass fraction in northern than southern silver birch (Betula pendula Roth) in uniform growing conditions

Fotoniikasta valoa Suomen hyvinvointiin: Selvitys alan vaikuttavuudesta ja kasvunäkymistä

Kohti virtuaalisuutta kasvibiologian opetuksessa

Leaf Canopy Layers Affect Spectral Reflectance in Silver Birch

Narrowband-autofluorescence imaging for bone analysis

Automated image analysis tool to measure microbial growth on solid cultures

Genotype- and provenance-related variation in the leaf surface secondary metabolites of silver birch

Imaging lichen water content with visible to mid-wave infrared (400 - 5500 nm) spectroscopy

Intrapopulation genotypic variation in leaf litter chemistry does not control microbial abundance and litter mass loss in silver birch, Betula pendula

Nordic research infrastructures for plant phenotyping

Transcriptional effects of cadmium on iron homeostasis differ in calamine accessions of Noccaea caerulescens

Intrapopulation Genotypic Variation of Foliar Secondary Chemistry during Leaf Senescence and Litter Decomposition in Silver Birch (Betula pendula)

Low vapor pressure deficit reduces glandular trichome density and modifies the chemical composition of cuticular waxes in silver birch leaves

Thermal and hyperspectral imaging for Norway spruce (Picea abies) seeds screening

Natural Vision Data File Format as a New Spectral Image Format for Biological Applications