Advanced search
Publication Cover
Journal of Forest Research Volume 29, 2024 - Issue 2
Submit an article Journal homepage
961
Views
1
CrossRef citations to date
0
Altmetric
Silviculture and Plant Sciences

Haplotype-resolved de novo genome assemblies of four coniferous tree species

Kenta Shirasawaa Department of Research and Development, Kazusa DNA Research Institute, Kisarazu, Chiba, JapanCorrespondence[email protected]
ORCID Iconhttps://orcid.org/0000-0001-7880-6221View further author information
ORCID Icon,
Kentaro Mishimab Tohoku Regional Breeding Office, Forest Tree Breeding Center, Forestry and Forest Products Research Institute, Forest Research and Management Organization, Takizawa, Iwate, JapanView further author information
,
Hideki Hirakawaa Department of Research and Development, Kazusa DNA Research Institute, Kisarazu, Chiba, JapanView further author information
,
Tomonori Hiraoc Breeding Department, Forest Tree Breeding Center, Forestry and Forest Products Research Institute, Forest Research and Management Organization, Hitachi, Ibaraki, JapanView further author information
,
Miyoko Tsubomurac Breeding Department, Forest Tree Breeding Center, Forestry and Forest Products Research Institute, Forest Research and Management Organization, Hitachi, Ibaraki, JapanView further author information
,
Soichiro Naganoc Breeding Department, Forest Tree Breeding Center, Forestry and Forest Products Research Institute, Forest Research and Management Organization, Hitachi, Ibaraki, JapanORCID Iconhttps://orcid.org/0000-0002-7933-653XView further author information
ORCID Icon,
Taiichi Ikib Tohoku Regional Breeding Office, Forest Tree Breeding Center, Forestry and Forest Products Research Institute, Forest Research and Management Organization, Takizawa, Iwate, JapanView further author information
,
Sachiko Isobea Department of Research and Development, Kazusa DNA Research Institute, Kisarazu, Chiba, JapanORCID Iconhttps://orcid.org/0000-0002-9555-5054View further author information
ORCID Icon &
Makoto Takahashic Breeding Department, Forest Tree Breeding Center, Forestry and Forest Products Research Institute, Forest Research and Management Organization, Hitachi, Ibaraki, JapanORCID Iconhttps://orcid.org/0000-0003-3396-6111View further author information
ORCID Icon show all
Pages 151-157 | Received 05 Jun 2023, Accepted 01 Oct 2023, Published online: 16 Oct 2023

Figures & data

Table 1. HiFi library preparation protocols used in this study.

Figure 1. Total length, N50 value, and number of HiFi reads obtained from DNA libraries prepared using six different protocols. The different symbols (square, circle, triangle, plus, cross, and diamond) indicate the different protocols (1, 2, 3, 4, 5, and 6, respectively; detailed in table 1), and different colors (red, blue, gray, and black) indicate the different tree species (Larix kaempferi, Chamaecyparis obtusa, Cryptomeria japonica, and Cunninghamia lanceolata, respectively).

Figure 1. Total length, N50 value, and number of HiFi reads obtained from DNA libraries prepared using six different protocols. The different symbols (square, circle, triangle, plus, cross, and diamond) indicate the different protocols (1, 2, 3, 4, 5, and 6, respectively; detailed in table 1), and different colors (red, blue, gray, and black) indicate the different tree species (Larix kaempferi, Chamaecyparis obtusa, Cryptomeria japonica, and Cunninghamia lanceolata, respectively).

Figure 2. Estimation of the genome sizes of L. kaempferi, C. obtusa, C. japonica, and C. lanceolata by k-mer distribution analysis. The k-mer size of 21 was used for the four species.

Figure 2. Estimation of the genome sizes of L. kaempferi, C. obtusa, C. japonica, and C. lanceolata by k-mer distribution analysis. The k-mer size of 21 was used for the four species.

Table 2. Genome assembly statistics of four timber tree species.

Supplemental material

Supplemental Material

Download MS Excel (13.1 KB)

Related research

People also read lists articles that other readers of this article have read.

Recommended articles lists articles that we recommend and is powered by our AI driven recommendation engine.

Cited by lists all citing articles based on Crossref citations.
Articles with the Crossref icon will open in a new tab.