Reviewer name and names of any other individual's who aided in reviewer	haifei hu
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Is the data acquisition clear, complete and methodologically sound?	Yes
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Is there sufficient data validation and statistical analyses of data quality?	No
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Any Additional Overall Comments to the Author	Fuller et al. conducted an interesting work on the Vicia villosa genome study, which could be beneficial for the science community. However, there are some concerns about this work before it can be published. 1. Introduction The MS seems to indicate the V.villosa genome is important for breeding, and it is an ideal legume that can grow in winter. But the coming analysis and results are missing to address this. The authors should include additional analysis, at least in the gene annotation session, to indicate what genes are potentially associated with the improvement of genetic-based selection and the ability to grow in winter conditions. After reading the MS, it looks like it mainly focuses on the comparison of the V.vilsoa genome and the V.sativa genome. Please indicate why it is important to do so and provide more background on V.sativa in the introduction. Line 59. It is too sudden to start to describe high heterozygosity as still in the challenge without directly linking to V.villosa. The authors need to include the background that V.villosa is heterozygous first, then talk about how challenging it is to generate an assembly. 2. Methods Line 112: Why is the estimation based on K-mer size quite different from the generated assembly size? The authors’ explanation is weak and needs an in-depth and better explanation of these unexpected results. Did you see any similar observations in other studies? Please give examples(citations). Line 121: Any reason not to use the commonly used HiFi assembler HFi-asm? Line 142-143: Did you have a file to record which genome regions you have introduced the breaks and how this step was performed? Line 158: the unit bp changed into Mb for better comparison Line 160: Here, you should use contig N50 rather than scaffold N50 to indicate the quality of the gnome. And you need to compare the contig N50 with the V.sativa. 3. DATA VALIDATION AND QUALITY CONTROL Should perform BUSCO and LAI to assess the quality of the genome in the main text. 4 Phylogenetic tree construction Soybean is an important legume species, and it will make this result more useful and interesting for readers. You should include the Wm82 V4 genome for this analysis. And the version of other legume species’ genomes needs to be indicated. 5 Figures Figure 3 HiC alignment map shows near 600Mb genomes can not be scaffolded into a genome. Any reason? What is the green dot point in the figure? Figure 4 b, the BUSCO of Vvil1.0 is much higher than V.stativa. Any reason? And no description of how you perform the BUSCO analysis in the main text. Figure 6 Circle plot, would that possible to rename the scaffold as a chromosome based on the alignment between V.sativa and V.vil?
Recommendation	Major Revision