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The abundance of both flower-visiting insects and flowering plants in semi-natural grasslands in temperate zones has declined as a result of overbrowsing by deer. The construction of deer fences is an effective method for biodiversity conservation because these fences prevent the invasion of deer. However, few studies have elucidated the biodiversity conservation effects of deer fences in semi-natural grasslands. Here we investigated the effects of the construction of deer fences on the diversity of butterflies, bumblebees, and flowering plants on the Kirigamine Plateau, Nagano Prefecture, Japan, which is covered by semi-natural grassland. The number of species of flowering plants inside the deer fences was higher than that outside the deer fences. The numbers of individuals and species of flower-visiting butterflies and bumblebees also tended to be higher inside the deer fences than outside the deer fences. On the other hand, there tended to be no difference in the number of individuals and species of non-flower-visiting butterflies inside and outside the deer fences. The diversity of flowering plants, butterflies, and bumblebees within the fenced areas was not substantially affected by the size of the fenced-off area. Our findings suggested that the construction of deer fences can contribute to the conservation of both flower-visiting insects and flowering plants in semi-natural grassland.

To elucidate the origin and migration history of the “Mansen elements,” a group of temperate grassland plants mainly distributed in northeastern Asia, phylogeographic analyses based on chloroplast DNA markers and double-digest restriction site-associated DNA sequencing (ddRAD-seq) data were performed on Viola orientalis, one of the representative species of the group. Phylogenetic analyses using ddRAD-seq data revealed that the populations of V. orientalis were clustered into five clades, among which the continental clades made of populations from Russia and Korea diverged more than 100,000 years earlier than the Japanese clades. The Japanese clade likely diverged during the last glacial period, followed by a further post-glacial divergence into the Kyushu and the Honshu subclades. Our study demonstrated that V. orientalis originated in the continental area of northeastern Asia and, during the last glacial period, has spread southward through the Korean Peninsula across the Japanese Islands. This finding supports the previously proposed evolutionary hypothesis regarding the origin and migration routes of the Mansen elements.

The Hokkaido Eastern Iburi Earthquake (M = 6.7) occurred on Sep. 6, 2018 in the southern part of Central Hokkaido, Japan. Since Paleogene, this region has experienced the dextral oblique transpression between the Eurasia and North American (Okhotsk) Plates and the subsequent collision between the Northeast Japan Arc and the Kuril Arc due to the oblique subduction of the Pacific Plate. This earthquake occurred beneath the foreland fold-and-thrust belt of the Hidaka Collision zone developed by the collision process, and is characterized by its deep focal depth (~ 37 km) and complicated rupture process. The reanalyses of controlled source seismic data collected in the 1998–2000 Hokkaido Transect Project revealed the detailed structure beneath the fold-and-thrust belt, and its relationship with the aftershock activity of this earthquake. Our reflection processing using the CRS/MDRS stacking method imaged for the first time the lower crust and uppermost mantle structures of the Northeast Japan Arc underthrust beneath a thick (~ 5–10 km) sedimentary package of the fold-and-thrust belt. Based on the analysis of the refraction/wide-angle reflection data, the total thickness of this Northeast Japan Arc crust is only 16–22 km. The Moho is at depths of 26–28 km in the source region of the Hokkaido Eastern Iburi Earthquake. Our hypocenter determination using a 3D structure model shows that most of the aftershocks are distributed in a depth range of 7–45 km with steep geometry facing to the east. The seismic activity is quite low within the thick sediments of the fold–thrust belt, from which we find no indication on the relationship of this event with the shallow (< 10–15 km) and rather flat active faults developed in the fold-and-thrust belt. On the other hand, a number of aftershocks are distributed below the Moho. This high activity may be caused by the cold crust delaminated from the Kuril Arc side by the arc–arc collision, which prevents the thermal circulation and cools the forearc uppermost mantle to generate an environment more favorable for brittle fracture.

To clarify the relationship between earthquake occurrence and fluid, we analyzed data from a dense aftershock-observation network with 69 high-gain short-period seismographs installed immediately after the mainshock occurrence (October 21) in the aftershock area of the 2016 Central Tottori Prefecture earthquake. We determined the hypocenters and focal mechanisms of the aftershocks very precisely in the period from October 22 to December 15. We then investigated the temporal changes in the spatial distributions of hypocenters and T-axis azimuths of focal mechanisms. The distributions of aftershock hypocenters and T-axis azimuths are basically temporally stable, except those in limited portions in the shallow layer near the western edge of the aftershock area, where rapid decrease of aftershocks with T-axis azimuths of WSW to west was observed. If fluid rises from the lower crust due to fault rupture, the locations of aftershocks and focal mechanisms may change over time, especially in the deepest part of the aftershock region. However, the temporal change in these parameters was not apparent at depth. These observations suggest that the aftershock activity of the Central Tottori Prefecture earthquake was controlled mainly by stress concentration rather than strength reduction due to high fluid pressure.

In the original publication of this article (Iwasaki et al. 2019), the author name ‘Matsubara Makoto’ in author list is not correct. The correct name should be ‘Makoto Matsubara’.

The chloroplast (cp) genome is a widely used tool for exploring plant evolutionary relationships, yet its effectiveness in fully resolving these relationships remains uncertain. Integrating cp genome data with nuclear DNA information offers a more comprehensive view but often requires separate datasets. In response, we employed the same raw read sequencing data to construct cp genome-based trees and nuclear DNA phylogenetic trees using Read2Tree, a cost-efficient method for extracting conserved nuclear gene sequences from raw read data, focusing on the Aurantioideae subfamily, which includes Citrus and its relatives. The resulting nuclear DNA trees were consistent with existing nuclear evolutionary relationships derived from high-throughput sequencing, but diverged from cp genome-based trees. To elucidate the underlying complex evolutionary processes causing these discordances, we implemented an integrative workflow that utilized multiple alignments of each gene generated by Read2Tree, in conjunction with other phylogenomic methods. Our analysis revealed that incomplete lineage sorting predominantly drives these discordances, while introgression and ancient introgression also contribute to topological discrepancies within certain clades. This study underscores the cost-effectiveness of using the same raw sequencing data for both cp and nuclear DNA analyses in understanding plant evolutionary relationships.

After a large earthquake, many small earthquakes, called aftershocks, ensue. Additional large earthquakes typically do not occur, despite the fact that the large static stress near the edges of the fault is expected to trigger further large earthquakes at these locations. Here we analyse ~10,000 highly accurate focal mechanism solutions of aftershocks of the 2016 Mw 6.2 Central Tottori earthquake in Japan. We determine the location of the horizontal edges of the mainshock fault relative to the aftershock hypocentres, with an accuracy of approximately 200 m. We find that aftershocks rarely occur near the horizontal edges and extensions of the fault. We propose that the mainshock rupture was arrested within areas characterised by substantial stress relaxation prior to the main earthquake. This stress relaxation along fault edges could explain why mainshocks are rarely followed by further large earthquakes.

Adaptive divergence at the microgeographic scale has been generally disregarded because high gene flow is expected to disrupt local adaptation. Yet, growing number of studies reporting adaptive divergence at a small spatial scale highlight the importance of this process in evolutionary biology. To investigate the genetic basis of microgeographic local adaptation, we conducted a genome-wide scan among sets of continuously distributed populations of Arabidopsis halleri subsp. gemmifera that show altitudinal phenotypic divergence despite gene flow. Genomic comparisons were independently conducted in two distinct mountains where similar highland ecotypes are observed, presumably as a result of convergent evolution. Here, we established a de novo reference genome and employed an individual-based resequencing for a total of 56 individuals. Among 527,225 reliable SNP loci, we focused on those showing a unidirectional allele frequency shift across altitudes. Statistical tests on the screened genes showed that our microgeographic population genomic approach successfully retrieve genes with functional annotations that are in line with the known phenotypic and environmental differences between altitudes. Furthermore, comparison between the two distinct mountains enabled us to screen out those genes that are neutral or adaptive only in either mountain, and identify the genes involved in the convergent evolution. Our study demonstrates that the genomic comparison among a set of genetically connected populations, instead of the commonly-performed comparison between two isolated populations, can also offer an effective screening for the genetic basis of local adaptation.

We show fine‐scale variations of seismic velocities and converted teleseismic waves that reveal the presence of zones of high‐pressure fluids released by progressive metamorphic dehydration reactions in the subducting Philippine Sea plate in Tokai district, Japan. These zones have a strong correlation with the distribution of slow earthquakes, including long‐term slow slip (LTSS) and low‐frequency earthquakes (LFEs). Overpressured fluids in the LTSS region appear to be trapped within the oceanic crust by an impermeable cap rock in the fore‐arc, and impede intraslab earthquakes therein. In contrast, fluid pressures are reduced in the LFE zone, which is deeper than the centroid of the LTSS, because there fluids are able to infiltrate into the narrow corner of the mantle wedge, leading to mantle serpentinization. The combination of fluids released from the subducting oceanic crust with heterogeneous fluid transport properties in the hanging wall generates variations of fluid pressures along the downgoing plate boundary, which in turn control the occurrence of slow earthquakes.

, a perennial herb in subsection , is endemic to the snowy mountainous regions on the Sea of Japan side of Japan. Its complete chloroplast genome was 156,056 bp in length, comprising one large single-copy region (86,407 bp), one small single-copy region (17,301 bp), and two inverted repeat regions (27,174 bp each). It contained 111 unique genes, including 77 protein-coding genes, 30 transfer RNA genes, and 4 ribosomal RNA genes. Phylogenetic analysis placed in a clade with subsection species and some species, while other species formed a distinct clade, contrasting with previous nuclear ITS results. These findings highlight the phylogenetic complexity within