SAMPLES MICROBE CHROMOSOME SIZES (Mb) PLASMID SIZES (kb) BARCODES ------- --------------------- ------------------ --------------------------- Acinetobacter baumannii AYE 3.9 9.7; 5.6; 2.7 bc2001,bc2025,bc2049,bc2073 Bacillus cereus 971 5.4 15.2 bc2002,bc2026,bc2050,bc2074 Bacillus subtilis W23 4 - bc2003,bc2027,bc2051,bc2075 Burkholderia cepacia UCB 717 3.8; 3.4; 1.2 204 bc2004,bc2028,bc2052,bc2076 Burkholderia multivorans 249 3.4; 2.5; 0.92 167 bc2005,bc2029,bc2053,bc2077 Enterococcus faecalis OG1RF 2.7 - bc2006,bc2030,bc2054,bc2078 Escherichia coli H10407 5.2 95; 68; 67; 5.8; 5.5 bc2007,bc2031,bc2055,bc2079 Escherichia coli K12 MG1655 4.6 - bc2008,bc2032,bc2056,bc2080 Helicobacter pylori J99 1.6 - bc2009,bc2033,bc2057,bc2081 Klebsiella pneumoniae BAA-2146 5.4 141; 118; 84; 2 bc2010,bc2034,bc2058,bc2082 Listeria monocytogenes Li2 3 - bc2011,bc2035,bc2059,bc2083 Listeria monocytogenes Li23 3 - bc2012,bc2036,bc2060,bc2084 Methanocorpusculum labreanum Z 1.8 - bc2013,bc2037,bc2061,bc2085 Neisseria meningitidis FAM18 2.2 - bc2014,bc2038,bc2062,bc2086 Neisseria meningitidis Serogroup B 2.3 - bc2015,bc2039,bc2063,bc2087 Rhodopseudomonas palustris CGA009 5.4 8.4 bc2016,bc2040,bc2064,bc2088 Salmonella enterica LT2 4.9 93.9 bc2017,bc2041,bc2065,bc2089 Salmonella enterica Ty2 4.8 - bc2018,bc2042,bc2066,bc2090 Staphylococcus aureus Seattle 1945 2.7; 0.07 27.5 bc2019,bc2043,bc2067,bc2091 Staphylococcus aureus USA300 TCH1516 2.9 28; 2 bc2020,bc2044,bc2068,bc2092 Streptococcus pyogenes Bruno 1.8 - bc2021,bc2045,bc2069,bc2093 Thermanaerovibrio acidaminovorans DSM6589 1.9 - bc2022,bc2046,bc2070,bc2094 Treponema denticola A 2.8 - bc2023,bc2047,bc2071,bc2095 Vibrio parahaemolyticus EB101 3.3; 1.9 - bc2024,bc2048,bc2072,bc2096 METHODS 96 libraries were prepared, 4 replicates per sample for each of 24 samples. INPUT 1 µg / sample SHEARING Megaruptor 3 at speed 40 BARCODING SMRTbell Barcoded Adapter Plate 3.0 (102-009-200) SEQUENCING Sequel II System, 15 hr movie, 2 hr pre-extension, 0.85 adaptive loading target ANALYSIS Generate HiFi reads with ccs v6.2.0, including `--hifi-kinetics` Demultiplex with lima v2.3.99: `lima --split-named --preset HIFI-SYMMETRIC --single-side` Assemble with HiFi Microbial Assembly application in SMRT Link 10.2 using default parameters