Table 1 Comparison of genome assembly metrics between Pinctada maxima and other bivalve genomes.
Genome assembly | Pinctada maxima | Pinctada fucata | Pteria penguin | Pinctada imbricata | Pinctada radiata | Crassostrea gigas | Crassostrea virginica | Crassostrea hongkongensis | Ostrea edulis |
|---|---|---|---|---|---|---|---|---|---|
Assembled genome size (bp) | 1,264,926,820 | 1,039,545,996 | 838,713,081 | 990,984,031 | 931,129,676 | 563,985,803 | 684,741,128 | 608,622,584 | 894,786,893 |
Largest scaffold (bp) | 137,924,361 | 113,122,503 | 93,594,500 | 104,615,532 | 98,733,858 | 76,070,991 | 104,168,038 | 64,470,731 | 112,480,954 |
GC rate (% of genome) | 36.18 | 35.48 | 35.14 | 35.31 | 35.42 | 33.55 | 34.83 | 33.50 | 35.49 |
Scaffold N50 size (bp) | 89,192,998 | 72,757,956 | 60,661,133 | 59,032,463 | 63,836,525 | 57,274,926 | 75,944,018 | 55,855,599 | 94,306,699 |
Contig N50 size (bp) | 649,306 | 1,021,642 | 5,032,149 | 21,517 | 8,065,000 | 7,289,204 | 1,971,208 | 2,576,225 | 2,427,391 |
QV | 55.64 | \ | \ | \ | \ | \ | \ | \ | \ |
BUSCO % (Mollusca_odb10/Metazoa_odb10) | |||||||||
Complete (C) | 95.26/97.38 | 95.96/97.48 | 95.68/97.27 | 83.08/87.63 | 95.26/97.48 | 97.19/96.33 | 98.85/98.64 | 99.30/99.37 | 99.36/100.00 |
Complete and single-copy (S) | 93.75/96.02 | 94.43/96.23 | 95.13/96.86 | 72.03/76.00 | 94.24/96.75 | 96.62/95.28 | 80.28/71.85 | 98.73/98.32 | 98.38/98.43 |
Complete and duplicated (D) | 1.51/1.36 | 1.53/1.26 | 0.55/0.42 | 11.05/11.64 | 1.02/0.73 | 0.57/1.05 | 19.24/25.79 | 0.57/1.05 | 0.98/0.63 |
Fragmented (F) | 0.62/0.21 | 0.60/0.84 | 0.64/0.31 | 3.25/4.93 | 0.53/0.63 | 0.09/0.31 | 0.17/0.31 | 0.19/0.21 | 0.32/0.42 |
Missing (M) | 4.12/2.41 | 3.44/1.68 | 3.68/2.41 | 13.67/7.44 | 4.21/1.89 | 2.72/3.35 | 0.98/1.05 | 0.51/0.42 | 0.32/0.52 |
Total groups searched | 5,295/954 | 5,295/954 | 5,295/954 | 5,295/954 | 5,295/954 | 5,295/954 | 5,295/954 | 5,295/954 | 5,295/954 |
