Data from: Chromosome scale genome assemblies and annotations for Poales species Carex cristatella, Carex scoparia, Juncus effusus and Juncus inflexus

The majority of sequenced genomes in the Monocots are from species
belonging to the Poaceae, which includes many commercially important
crops. Here, we expand the number of sequenced genomes from the Monocots
to include the genomes of four related Cyperids: Carex cristatella and
Carex scoparia from Cyperaceae and Juncus effusus and Juncus inflexus from
Juncaceae. The high-quality, chromosome-scale genome sequences from these
four Cyperids were assembled by combining whole-genome shotgun sequencing
of Nanopore long reads, Illumina short reads, and Hi-C sequencing data.
Some members of the Cyperaceae and Juncaceae are known to possess
holocentric chromosomes.  We examined the repeat landscapes in
our sequenced genomes to search for potential repeats associated with
centromeres. Several large satellite repeat families, comprising 3.2% to
9.5% of our sequenced genomes, showed dispersed distribution of large
repeat clusters across all Carex chromosomes, with few instances of these
repeats clustering in the same chromosomal regions. In contrast, most
large Juncus satellite repeats were clustered in a single location on each
chromosome, with sporadic instances of large satellite repeats throughout
the Juncus genomes. Recognizable transposable elements account for about
20% of the assemblies, with the Carex genomes containing more DNA
transposons than retrotransposons while the converse is true for the
Juncus genomes. These genome sequences and annotations will facilitate
better comparative analysis within monocots.