Data from: Phylogenetic distribution and expression pattern analyses identified a divergent basal body assembly protein involved in land plant spermatogenesis

Data from:
Phylogenetic distribution and expression pattern analyses identified a divergent basal body assembly protein involved in land plant spermatogenesis

Author information
Shizuka Koshimizu1, Naoki Minamino2, Tomoaki Nishiyama3, Emiko Yoro4, Mayuko Sato5, Mayumi Wakazaki5, Kiminori Toyooka5, Kazuo Ebine2,6, Keiko Sakakibara4, Takashi Ueda2,6, and Kentaro Yano1

1 School of Agriculture, Meiji University, Kawasaki 214-8571, Japan
2 Division of Cellular Dynamics, National Institute for Basic Biology, Okazaki 444-8585, Japan
3 Research Center for Experimental Modeling of Human Disease, Kanazawa University, Kanazawa 920-0934, Japan
4 Department of Life Science, Rikkyo University, Tokyo 171‐8501, Japan
5 RIKEN Center for Sustainable Resource Science, Yokohama 230-0045, Japan
6 Department of Basic Biology, SOKENDAI (The Graduate University for Advanced Studies), Okazaki 444-8585, Japan

This directory contains
0_README (this file)
1_Marchantia_FL_data
2_Physcomitrella_FL_data
3_Physcomitrella_TEM_images
4_PAML

1_Marchantia_FL_data
Raw image data using quantification of spermatid phenotypes in Marchantia.
quantification.xlsx: Summary of quantification data.
211111 and 211210: Observation date.
∟Mpbld10-1, Mpbld10-2, and Tak-1: Observed lines.
∟raw data: *.lsm files are raw image data.
∟binary image: *.tif files are binarization images of the Hoechst33342 data.
∟DIC: *.tif files are maximum intensity projection images of the C2 channels (detection of DIC images) of the raw data.
∟Hoechst33342: *.tif files are maximum intensity projection images of the C1 channels (detection of Hoechst33342 signals) of the raw data.

2_Physcomitrella_FL_data
Merged data of DIC and Hoechst33342 signal images using quantification of spermatid phenotypes in Physcomitrella.
line22-*.png: The images of Ppbld10-22 mutant.
line30-*.png: The images of Ppbld10-30 mutant.
wt.png: The images of wild type.
Number in the images
1: With flagella
2: Without flagella

3_Physcomitrella_TEM_images
TEM images of spermatids in the Ppbld10-30 mutant, except for images shown in Supporting Information Fig. S11.

4_PAML
Files using analysis by PALM.
input.fasta: Input multi fasta file.
species_tree.nwk: The gene tree file for the global clock model (rooted using chlorophytes as an outgroup).
species_tree_marked.nwk: A gene tree file with marks specifying land plant stem and crown branches as category #1 (for a local clock model).
clock1: A directory containing output files of a PAML run with the global clock model (clock = 1)
clock2: A directory containing output files of a PAML run with a local clock model (clock = 2). The branches assumed to have a different rate (r1) than the default rate r0 are specified with #1 in species_tree_marked.nwk.