An improved pollen number counting method using a cell counter and mesh columns
Plant Methods volume 16, Article number: 124 (2020)
The determination of pollen number is important in evolutionary, agricultural, and medical studies. Tree species of the Cupressaceae family cause serious pollinosis worldwide. Although Japanese cedar (Cryptomeria japonica) is the most important forestry species in Japan, it is also the biggest cause of pollinosis in the country. Japanese cedar trees have been selected for growth speed and superior morphological traits and then cloned. These clones may vary in their pollen production, but there has been little research on how many pollen grains are produced by a single male strobilus (flower). A recently reported method for counting pollen number with a cell counter was applicable to Arabidopsis species and wheat, but was not suitable for Japanese cedar because the strobilus does not open with heating (e.g. 60 °C, overnight).
Here, we report an improved pollen counting method for Japanese cedar using a precise and rapid cell counter in combination with home-made mesh columns. The male strobilus was gently crushed using a pestle. Large and small debris were then removed using 100- and 20-μm mesh columns, respectively. We successfully detected pollen sizes and numbers that differed between two clones using this method.
This improved method is not only suitable for counting pollen from Japanese cedar, but could also be applied to other species of the Cupressaceae family with hard scale tissue covering the pollen. Moreover, this method could be applied to a broader range of plant species, such as wheat, because there is no need to wait for anthesis and debris can be removed efficiently.
The determination of pollen grain number is important in evolutionary, agricultural, and medical studies. From an evolutionary perspective, selfing plant species tend to produce lower pollen numbers than closely related outcrossing plant species [1,2,3,4,5]. The reduced pollen number in selfing plants is thought to decrease the cost of pollen production. From an agricultural perspective, domesticated species such as rice tend to have low pollen numbers ; however, the production of large numbers of pollen grains is one of the desired traits in hybrid wheat breeding . A high pollen number is also a desired trait for crops that require artificial pollination because artificial pollination require a lot of pollen [8, 9]. From a medical perspective, pollen is relevant because it can lead to an allergic reaction called pollinosis [10, 11].
The recent development of next-generation sequencing techniques has enabled the genomic sequences of almost 600 plant species to be determined . These sequenced genomes include those of plant species that have huge genome sizes, such as sugar pine (27.6 GB) or wheat (16 GB) [13, 14]. Combined analyses of sequence and phenotype data is a powerful tool for the identification of new genes. We recently identified a gene controlling pollen number using a genome-wide association study in Arabidopsis thaliana . To estimate the pollen number from A. thaliana accessions, we developed a high-throughput method to count pollen grains efficiently . Pollen numbers showed large variation within individuals and between species; therefore, the phenotyping step should be optimized based on the plant species and pollen number variation determined in a preliminary experiment.
The Cupressaceae family is conifer species with a world-wide distribution and it contains species causing serious pollinosis such as cypress (Cupressus species, Chamaecyparis obtusa), Japanese cedar (Cryptomeria japonica), and mountain cedar (Juniperus ashei) . Japanese cedar is an evergreen tree and is the most important forestry species in Japan because it has excellent properties for use in Japanese architecture . However, the pollen of Japanese cedar is the most serious allergen in Japan. Although the pollen grain number of Japanese cedar has been reported previously [18, 19], sample numbers were limited. Traditionally, the number of pollen grains has been counted using a hemocytometer under a microscope [20,21,22], but this method is time-consuming and laborious. Recently, efficient pollen counting methods using cell counter were developed [CASY cell counter (OMNI Life Science, Germany ) or Ampha Z32 (Amphasys, Switzerland [23, 24])]. Anthers from these plants were forcibly opened by heating (60 °C, overnight) from A. thaliana and wheat . To count pollen grains of Japanese cedar using a cell counter, we attempted to apply the same protocol; however, the male strobilus (flower) of Japanese cedar consists of a hard scale structure and it did not open with heating. Here, we report an improved pollen counting protocol using a cell counter and home-made mesh columns. We confirmed that Japanese cedar pollen can be counted efficiently using this method.
Trees of Japanese cedar (Cryptomeria japonica) were grown in the Niigata prefectural forest research institute. Three clones, ‘Iwafune-9’, ‘Iwafune-15’, and ‘Nishikanbara-1’ were used. Male strobili were collected in February 2020. Pollen grains are already matured during this period .
Preparation of home-made mesh columns
To remove large and small debris, two types of polyester mesh [20-μm opening size (MEDIFAB 07-20/13, Sefar AG, Switzerland) and 100-μm opening size (PETEX PET105, Sefar AG)] were used. The concept of using mesh columns was derived from a protein experimental protocol . The bottom of a 0.6-mL sample tube was removed around the 100-μL line using scissors and bound with the polyester mesh by heating (for details see Fig. 1). The pieces of mesh were 1 × 1 cm (Fig. 1).
Preparation of pollen suspension
A flowchart of the pollen suspension preparation method is provided in Fig. 2. The male strobilus was gently crushed using a pestle in a 1.5-mL tube and 250 μL of distilled water (DW) was added to the 1.5-mL tube (Figs. 3a–d). The pollen-containing suspension was moved to a new 1.5-mL tube. To collect almost all of the pollen, an additional 250 μL of DW was added to the first tube and remaining pollen was suspended. This suspension was then added to the first pollen suspension for a total volume of 500 μL. The suspension was transferred to a 100-μm mesh column and centrifuged at 2000g for 5 s. The column retaining the large male strobilus tissues was discarded and the flowthrough was transferred to a 20-μm mesh column. This suspension was centrifuged at 2000g for 1 min. Particles > 20 μm that were trapped by the mesh were suspended with 500 μL of DW and transferred to a new 1.5-mL tube. The 20-μm mesh column was washed with another 500 μL of DW to collect almost all of the remaining particles and transferred to the 1.5-mL tube for a total volume of 1 mL.
Pollen counting using a CASY cell counter
The cell counter (CASY cell counter) parameters were set as described in Table 1. We chose the size range from 27.75 to 45 μm as pollen particle because this range covered pollen peak from all samples without contamination from small/large particles. A 200-μL pollen suspension was mixed with 10 mL of CASYton (OMNI Life Science). Particle numbers were counted using a cell counter by sampling 400 μL three times. Viable cells were calculated as the total pollen number per strobilus using the following equation:
Taken together, cell counter counted 1/42.5 of pollen grains of one strobilus.
The distribution of pollen number and size data from a single strobilus were displayed using the CASY application (OMNI Life Science). A scatter plot was constructed using the R package ggplot2 .
Crushing the male strobilus using a pestle to collect pollen grains
To count the number of pollen grains per strobilus precisely, it is important to collect all of the pollen grains from the strobilus. The model plant A. thaliana has thin anthers that open easily at high temperatures (60 °C, overnight ). We attempted to open the male strobili of Japanese cedar by heating or drying, but this approach was not successful. The male strobilus of Japanese cedar has a hard scale structure, unlike the anthers from Arabidopsis species or wheat  (Fig. 3a). We then attempted to crush the male strobilus with a pestle to break the scale structure. Pollen grains are physically stronger than other plant tissues because they have an external wall layer called the exine, which is a physically and chemically resistant structure . A male strobilus was gently crushed using a pestle (Fig. 3b, c), and then suspended in DW using a pipette (Fig. 3d). The scale structure was separated after pipetting and we successfully collected all of the pollen from the pollen-containing suspension (Fig. 3e, f).
Removing large debris from the pollen-containing suspension using a 100-μm mesh column
The pollen suspension contained not only pollen grains but also large amounts of large and small debris (e.g., scale tissue, anther wall, etc.). Because the cell counter cannot count particles > 150 μm due to the capillary becoming blocked, we made a 100-μm mesh column to remove the large debris. Japanese cedar pollen typically has a round shape with a 35-μm diameter as determined from microscope observations so it was unlikely to be retained by the 100-μm mesh column. The pollen-containing suspension was loaded onto the 100-μm mesh column and centrifuged. Large scale structures were retained in the column without stopping the passage of the pollen grains. Pollen grains moved to the flowthrough area (Fig. 2d). The capillary of the cell counter remained unblocked throughout this study, suggesting that the 100-μm mesh column successfully removed large debris.
Removing small debris from the pollen-containing suspension using a 20-μm mesh column
The cell counter can count a maximum of 20,000 particles in a single measurement. The flowthrough suspension passing through the 100-μm mesh column contained many small particles. Figure 4 shows the particle distribution with or without passage of the same sample through a 20-μm mesh column. More than 20,000 particles were detected in a pollen suspension without passage through a 20-μm mesh column (total of 21,097 particles; Fig. 4a). In contrast, many small debris particles were removed after using the 20-μm mesh column (total of 17,185 particles remained in suspension; Fig. 4b, c). In the 27.75- to 45-μm particle size range, almost the same number of pollen grains remained with or without the use of the 20-μm mesh column (6454 vs 6463 particles, respectively; Fig. 4d). Table 2 and Fig. 5 shows the efficiency of the 20-μm mesh column for removing small debris. Approximately, 32% of the debris was removed using the 20-μm mesh column. To check whether pollen grains leaked through the 20-μm mesh column, the pollen number was counted for the pollen retained by the 20-μm mesh (normal pollen suspension) and for the pollen in the flowthrough after using the 20-μm mesh column. The particle distribution pattern revealed a clear pollen peak from the pollen sample retained by the mesh, whereas there was no peak observed in the flowthrough (Fig. 6). Table 3 shows the numbers of particles between 27.75 and 45 μm in the 20-μm mesh column-trapped samples and flowthrough samples. Less than 3% of the particles were detected in flowthrough samples for all samples. These results suggest that the use of the 20-μm mesh column reduced the amount of small debris in the pollen suspension with no loss of pollen grains.
Numbers and sizes of pollen grains from two Japanese cedar clones
Pollen number and size for ‘Iwafune-9’ and ‘Nishikanbara-1’ were measured by the cell counter. Twenty-two strobili from ‘Iwafune-9’ and 30 strobili from ‘Nishikanbara-1’ were analyzed. Figure 7a shows the pollen number and size distribution of 52 samples. The two clones had clearly different pollen sizes. ‘Iwafune-9’ had a low pollen grain number (mean pollen number = 196,754) but a larger pollen size (mean pollen diameter = 34.59 μm) compared to ‘Nishikanbara-1’ (mean pollen number = 304,429, mean pollen diameter = 31.79 μm). Even among clones, there was more than a two-fold difference in pollen number. Such a large variation in pollen number from the same plant has also been reported in Arabidopsis species and in wheat [5, 15]. Figure 7b shows the particle size distribution for representative samples from ‘Iwafune-9’ (magenta) and ‘Nishikanbara-1’ (green). Both samples showed a clear single peak in the viable cell range, which is the size range we expected based on microscopy observations. There was typically a 10-μm variation in pollen size within the same strobilus (e.g., 30 to 40 μm from ‘Iwafune-9’ and 26 to 37 μm from ‘Nishikanbara-1’; Fig. 7b).
Detection of pollen cells released from exines using a cell counter
Pollen of Japanese cedar has some unique features compared with angiosperm plant species. For example, mature Japanese cedar pollen cells include generative cells and tube cells . When mature pollen attaches to the nucellus (pollination), the intine structure, including the pollen cell, is released from the exine structure and the germinated pollen tube grows through the nucellus . This process is important for pollinosis patients because Cry j1 and Cry j2, which are the major allergenic proteins of Japanese cedar, are localized in the intine and intine is also released from the exine in the human eye [30,31,32]. In this study, most of the pollen grains were not released from exines after 24 h in DW (data not shown). On the other hand, we found that many pollen grains were released from the exine structure in CASYton after 30 min (Fig. 8a, b). The cell counter displayed an additional small peak after the pollen suspension was mixed with CASYton (Fig. 8c). The original pollen peak remained almost the same between 0 and 30 min. Although the two peaks derived from the exine and pollen cells were indicated by different particle diameters, we recommend determining the pollen number immediately after mixing with CASYton for species which have similar traits because a small overlap of the two peaks was detected (Fig. 8c, around 30 μm diameter).
Effectiveness of the improved pollen counting protocol with home-made mesh columns
We developed an improved protocol that allows pollen grains to be collected from a single strobilus without waiting for anthesis. We also demonstrated that two types of mesh could remove large and small debris efficiently. This system is a cost-effective method because the columns are home-made (one column costs less than 50 cents). In this method, the cell counter can count 1/42.5 of pollen grains of single strobilus within 5 min. This is much efficient and faster than the traditional microscope method because the standard microscope method only counts 1/10,000 of pollen grains of single flower/strobilus in 17 min. . Using this method, we can make lower pollen number clones by crossing low pollen number parents with superior woody traits. These offspring will have lower pollen numbers but have fine woody traits. For clonal propagation such as grafting, efficient pollen number counting will also contribute to choosing lower pollen number clones.
The cell counter revealed the pollen number and size variation between clones/samples and within samples in Japanese cedar. There was a 1.5-fold difference in pollen number between the two clones. The clones were clearly distinguishable by pollen size. Broader pollen measurements using more clones will reveal trends in pollen number and size in Japanese cedar in the future.
This column method is applicable not only for Japanese cedar but is also possibly applicable to a broader range of species. For example, the strobili of Cupressaceae species, such as Cupressus, Juniperius, and Chamaecyparis species, typically have scale tissue similar to the Japanese cedar . Counting the pollen grain number of these species is important because they are also pollinosis-causing species worldwide [16, 34, 35]. In plant breeding, an increase in pollen number is a desired trait . Although we previously established a pollen counting method for wheat, elongation of anther filaments takes time and the method requires cutting both tips of the anther with a syringe to enhance pollen release . The mesh column method described in this paper is less labor intensive and we are adopting this method to count wheat pollen now. In summary, this column method could possibly be applied to a broader range of species. The recent development of next-generation sequencing techniques allows unique genes to be identified in non-model species [36, 37]. Whole-genome sequencing is proceeding in Japanese cedar. The combination of our improved pollen counting method with a genome-wide analysis will provide new insights into pollen number, such as the identification of pollen number-controlling genes from Japanese cedar and wheat.
Herein, we report the efficient, high-throughput, and cost-effective pollen grain counting method applicable to flowers with hard scale tissue. This method is able to count 20,000 particles within 5 min. It is more than 100 times than traditional hemocytometer method. Two types of home-made column work to remove large or small particles effectively at low cost. This method is not only applicable to Japanese cedar but also to a broad range of plant species.
Availability of data and materials
The datasets used and/or analysed during the current study are available from the corresponding author on reasonable request.
Darwin C. The different forms of flowers on plants of the same species. London: John Murray; 1877. https://doi.org/10.1017/CBO9780511731419
Cruden RW. Pollen-ovule ratios: a conservative indicator of breeding systems in flowering plants. Evolution. 1977;31:32–46.
Sicard A, Stacey N, Hermann K, Dessoly J, Neuffer B, Baeurle I, et al. Genetics, evolution, and adaptive significance of the selfing syndrome in the genus Capsella. Plant Cell. 2011;23:3156–71.
Shimizu KK, Tsuchimatsu T. Evolution of selfing: recurrent patterns in molecular adaptation. Annu Rev Ecol Evol Syst. 2015;46:593–622.
Tsuchimatsu T, Kakui H, Yamazaki M, Marona C, Tsutsui H, Hedhly A, et al. Adaptive reduction of male gamete number in the selfing plant Arabidopsis thaliana. Nat Commun. 2020;11:1–9.
Oka H-I, Morishima H. Variations in the breeding systems of a wild rice, Oryza perennis. Evolution. 1967;21:249–58.
Langer SM, Longin CFH, Würschum T. Phenotypic evaluation of floral and flowering traits with relevance for hybrid breeding in wheat (Triticum aestivum L.). Plant Breed. 2014;133:433–41.
Franco-Mora O, Tanabe K, Tamura F, Itai A. Effects of putrescine application on fruit set in “Housui” Japanese pear (Pyrus pyrifolia Nakai). Sci Hortic. 2005;104:265–73.
Gonzalez MV, Coque M, Herrero M. Influence of pollination systems on fruit set and fruit quality in kiwifruit (Actinidia deliciosa). Ann Appl Biol. 1998;132:349–55.
Oh J-W. Pollen allergy in a changing world: a guide to scientific understanding and clinical practice. Singapore: Springer; 2018.
D’Amato G, Cecchi L, Bonini S, Nunes C, Annesi-Maesano I, Behrendt H, et al. Allergenic pollen and pollen allergy in Europe. Allergy. 2007;62:976–90.
Kersey PJ. Plant genome sequences: past, present, future. Curr Opin Plant Biol. 2019;48:1–8.
Stevens KA, Wegrzyn JL, Zimin A, Puiu D, Crepeau M, Cardeno C, et al. Sequence of the sugar pine megagenome. Genetics. 2016;204:1613–26.
IWGSC. Shifting the limits in wheat research and breeding using a fully annotated reference genome. Science. 2018;361:eaar7191.
Kakui H, Yamazaki M, Hamaya N-B, Shimizu KK. Pollen grain counting using a cell counter. In: Geitmann A, editor. Pollen and Pollen Tube Methods. Methods in Molecular Biology. Humana Press; 2020;2160: 1–11.
Charpin D, Calleja M, Lahoz C, Pichot C, Waisel Y. Allergy to cypress pollen. Allergy. 2005;60:293–301.
Tsumura Y. Cryptomeria. In: Kole C, editor. Wild crop relatives: genomics and breeding resources, forest trees. Berlin: Springer; 2011. p. 49–64.
Kondo T, Senda M. Tabuchi K Pollen grain number in a male flower of Sugi (Cryptomeria japonica). J Jpn Forest Soc. 1992;103:329–30 (in Japanese).
Ikuse M. On the number of pollen grains contained in anthers of some plants. Quaternary Res. 1965;4:3–4 (in Japanese).
Willis JH. The contribution of male-sterility mutations to inbreeding depression in Mimulus guttatus. Heredity. 1999;83:337–46.
De Vries AP. Some aspects of cross-pollination in wheat (Triticum aestivum L.). 3. Anther length and number of pollen grains per anther. Euphytica. 1974;23:11–9.
Ortega R, Aresti M, Pereira I. Implementation and evaluation of an image analysis system for determining viability of pollen grains in temperate rice. Chil J Agric Res. 2011;71:16–22.
Heidmann I, Schade-Kampmann G, Lambalk J, Ottiger M, Di Berardino M. Impedance flow cytometry: a novel technique in pollen analysis. PLoS ONE. 2016;11:e0165531.
Heidmann I, Di Berardino M. Impedance flow cytometry as a tool to analyze microspore and pollen quality. In: Schmidt A. editor, Plant Germline Development. Methods in Molecular Biology. Humana Press; 2017;1669: 339–54.
Tsubomura M, Kurita M, Watanabe A. Determination of male strobilus developmental stages by cytological and gene expression analyses in Japanese cedar (Cryptomeria japonica). Tree Physiol. 2016;36:653–66.
Akaogi K and Miyazaki K. Protein purification by SDS-PAGE. In: Okada M, Miyazaki K, editors. Notebook for Protein Experiments (3rd edition). Yodosha Japan. 2011. p.31–32. (in Japanese).
Wickham H. ggplot2: elegant graphics for data analysis (Use R). 2009. https://doi.org/10.1007/978-0-387-98141-3.
Ariizumi T, Toriyama K. Genetic regulation of sporopollenin synthesis and pollen exine development. Annu Rev Plant Biol. 2011;62:437–60.
Hiratsuka R, Terasaka O. Role of pectinase Cry j 2 during pollen tube growth in Cryptomeria japonica. Jpn J Palynol. 2012;58:51–9 (in Japanese).
Taniguchi Y, Ono A, Sawatani M, Nanba M, Kohno K, Usui H, et al. Cry j I, a major allergen of Japanese Cedar pollen, has pectate lyase enzyme-activity. Allergy. 1995;50:90–3.
Ohtsuki T, Taniguchi Y, Kohno K, Fukuda S, Usui M, Kurimoto M. Cry j 2, a major allergen of Japanese Cedar Pollen, shows polymethylgalacturonase activity. Allergy. 1995;50:483–8.
Miki-Hirosige H, Nakamura S, Yasueda H, Shida T, Takahashi Y. Immunocytochemical localization of the allergenic proteins in the pollen of Cryptomeria japonica. Sex Plant Reprod. 1994;7:95–100.
Schulz C, Klaus KV, Knopf P, Mundry M, Dörken VM, Stützel T. Male cone evolution in conifers: not all that simple. Am J Plant Sci. 2014;5:2842–57.
Van de Water PK, Keever T, Main CE, Levetin E. An assessment of predictive forecasting of Juniperus ashei pollen movement in the Southern Great Plains, USA. Int J Biometeorol. 2003;48:74–82.
Hrabina M, Dumur JP, Sicard H, Viatte A, Andre C. Diagnosis of cypress pollen allergy: in vivo and in vitro standardization of a Juniperus ashei pollen extract. Allergy. 2003;58:808–13.
Akagi T, Henry IM, Tao R, Comai L. A Y-chromosome-encoded small RNA acts as a sex determinant in persimmons. Science. 2014;346:646–50.
Akagi T, Pilkington SM, Varkonyi-Gasic E, Henry IM, Sugano SS, Sonoda M, et al. Two Y-chromosome-encoded genes determine sex in kiwifruit. Nat Plants. 2019;5:801–9.
We thank Yukiko Ito (Niigata prefectural forest research institute) for providing breeding materials, Junichi Nishimura (Nepa Gene) for technical assistance, Naoto-Benjamin Hamaya (University of Zurich) and Daisuke Kurihara (Nagoya University) for valuable suggestions.
This work was supported by Japan Society for the Promotion of Science KAKENHI Grant Number 19K05976 to HK, Project of the NARO Bio-oriented Technology Research Advancement Institution (Research program on development of innovative technology) Grant Number 28013BC to YM.
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Kakui, H., Tsurisaki, E., Sassa, H. et al. An improved pollen number counting method using a cell counter and mesh columns. Plant Methods 16, 124 (2020). https://doi.org/10.1186/s13007-020-00668-4
- Pollen number
- Pollen size
- CASY cell counter
- Japanese cedar (Cryptomeria japonica)