Nitrosopumilus maritimus genome reveals unique - de la Torre ...

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Nmar_0624 564,972 565,880 TFB TFB8 Nmar_0979 856,416 857,327 TFB TFB1 Nmar_0987 863,158 864,105 TFB TFB2 Nmar_1340 1,227,903 1,228,823 TFB TFB3 Nmar_1341 1,229,190 1,230,119 TFB TFB4 TRANSCIPTION BINDING PROTEINS Nmar_0598 534,324 534,884 TBP TBP2 Nmar_1519 1,382,425 1,382,988 TBP TBP1
Supplemental Table 4: Gene prediction coordinates shared between the N. maritimus and C. symbiosum genomes. N. maritimus ORF C. symbiosum ORF aa % indentity Start N. maritimus SCM1 Length End (aa) Strand Start C. symbiosum A Length End (aa) N. maritimus Annotation of Top BLAST Hit Strand 146 1,348 400 f 1,814,836 1,816,068 410 f cell division control protein 6 family protein Nmar_0002 CENSYa_1840 58 1,325 2,770 481 r 1,816,083 1,817,513 476 r DNA-directed DNA polymerase Nmar_0003 CENSYa_1841 53 2,881 3,387 168 f 1,817,646 1,818,176 176 f hypothetical protein Nmar_0005 CENSYa_1842 65 4,356 5,072 238 r 1,818,183 1,818,902 239 r precorrin-6y C5,15-methyltransferase (decarboxylating), CbiE subunit Nmar_0006 CENSYa_1843 58 5,075 5,566 163 r 1,818,899 1,819,387 162 r hypothetical protein Nmar_0007 CENSYa_1844 42 5,639 7,168 509 f 1,819,536 1,821,173 545 f peptidylprolyl isomerase Nmar_0008 CENSYa_1845 70 7,169 8,524 451 r 1,821,115 1,822,368 417 r FAD-dependent pyridine nucleotide-disulphide oxidoreductase Nmar_0009 CENSYa_1846 56 8,594 9,244 216 r 1,822,490 1,823,149 219 r hypothetical protein Nmar_0010 CENSYa_1847 63 9,370 9,861 163 f 1,823,259 1,823,753 164 f heat shock protein HSP20 Nmar_0011 CENSYa_1848 72 9,889 12,030 713 f 1,823,778 1,825,907 709 f AAA family ATPase, CDC48 subfamily Nmar_0013 CENSYa_1825 64 12,800 13,720 306 r 1,803,378 1,804,292 304 f transcription factor TFIIB cyclin-related Nmar_0018 CENSYa_1820 41 15,531 15,830 99 f 1,800,611 1,800,907 98 r hypothetical protein Nmar_0019 CENSYa_1875 49 15,827 16,771 314 r 1,848,134 1,849,048 304 r hypothetical protein Nmar_0020 CENSYa_1876 88 16,889 17,794 301 f 1,849,320 1,850,231 303 f transcription factor TFIIB cyclin-related Nmar_0021 CENSYa_1877 63 17,795 19,249 484 r 1,850,234 1,851,682 482 r sodium/hydrogen exchanger Nmar_0022 CENSYa_1879 52 19,365 19,907 180 f 1,852,830 1,853,375 181 f conserved hypothetical protein Nmar_0023 CENSYa_1880 80 19,920 20,459 179 f 1,853,445 1,853,939 164 f adenylylsulfate kinase Nmar_0024 CENSYa_1881 49 20,451 21,266 271 r 1,853,945 1,854,727 260 r inositol monophosphatase Nmar_0027 CENSYa_1883 44 22,532 22,960 142 r 1,855,370 1,855,804 144 r hypothetical protein Nmar_0029 CENSYa_1885 56 23,675 24,322 215 f 1,857,324 1,857,911 195 f conserved hypothetical protein Nmar_0033 CENSYa_1886 77 27,032 27,292 86 f 1,858,052 1,858,387 111 f hypothetical protein Nmar_0034 CENSYa_1887 45 27,296 28,303 335 f 1,858,390 1,859,367 325 f conserved hypothetical protein Nmar_0036 CENSYa_1891 68 28,710 28,904 64 f 1,861,583 1,861,777 64 f hypothetical protein Nmar_0037 CENSYa_1892 58 28,946 29,659 237 f 1,861,823 1,862,539 238 f radical SAM domain protein Nmar_0038 CENSYa_1893 75 29,723 30,280 185 f 1,862,589 1,863,158 189 f GTP cyclohydrolase I Nmar_0039 CENSYa_1894 28 30,258 30,575 105 f 1,863,183 1,863,527 114 f hypothetical protein Nmar_0040 CENSYa_1895 62 30,578 31,252 224 r 1,863,524 1,864,195 223 r ExsB family protein Nmar_0041 CENSYa_1896 59 31,256 32,179 307 r 1,864,192 1,864,965 257 r homoserine kinase Nmar_0042 CENSYa_1897 64 32,179 32,937 252 r 1,865,115 1,865,855 246 r protein of unknown function ATP binding Nmar_0043 CENSYa_1898 66 33,030 34,121 363 f 1,865,926 1,866,957 343 f conserved hypothetical protein Nmar_0044 CENSYa_1899 61 34,156 34,950 264 f 1,866,962 1,867,729 255 f short-chain dehydrogenase/reductase SDR Nmar_0046 CENSYa_1900 57 35,374 35,685 103 r 1,867,726 1,867,968 80 r hypothetical protein Nmar_0047 CENSYa_1901 65 35,839 37,074 411 r 1,868,110 1,869,285 391 r hypothetical protein Nmar_0048 CENSYa_1902 41 37,114 38,277 387 r 1,869,343 1,870,470 375 r thiamine biosynthesis ATP pyrophosphatase-like protein Nmar_0049 CENSYa_1903 68 38,305 39,030 241 f 1,870,540 1,871,325 261 f adenylylsulfate reductase, thioredoxin dependent Nmar_0050 CENSYa_1904 68 39,032 40,174 380 f 1,871,322 1,872,461 379 f sulfate adenylyltransferase Nmar_0051 CENSYa_1905 54 40,206 40,871 221 f 1,872,493 1,873,206 237 f hypothetical protein Nmar_0052 CENSYa_1906 71 40,855 41,511 218 r 1,873,004 1,873,837 277 r DNA-(apurinic or apyrimidinic site) lyase Nmar_0053 CENSYa_1907 59 41,561 42,715 384 f 1,873,844 1,875,040 398 f protein of unknown function DUF521 Nmar_0054 CENSYa_1908 62 42,712 43,098 128 f 1,875,088 1,875,396 102 f protein of unknown function DUF126 Nmar_0055 CENSYa_1920 49 43,073 45,031 652 r 1,885,975 1,887,870 631 f protein of unknown function DUF814 Nmar_0056 CENSYa_1919 46 45,126 45,602 158 f 1,885,281 1,885,766 161 r hypothetical protein Nmar_0057 CENSYa_1918 61 45,627 46,217 196 f 1,884,678 1,885,274 198 r precorrin-6Y C5,15-methyltransferase (decarboxylating), CbiT subunit Nmar_0058 CENSYa_1917 73 46,253 46,975 240 f 1,883,935 1,884,660 241 r precorrin-2 C20-methyltransferase Nmar_0059 CENSYa_1916 68 46,968 47,738 256 f 1,883,031 1,883,933 300 r precorrin-4 C11-methyltransferase Nmar_0061 CENSYa_1915 71 48,580 49,230 216 f 1,882,322 1,882,966 214 r conserved hypothetical protein Nmar_0062 CENSYa_1914 62 49,278 50,438 386 r 1,881,108 1,882,265 385 f glycosyl transferase family 2 Nmar_0063 CENSYa_1924 72 50,600 52,057 485 r 1,889,509 1,890,846 445 r glycyl-tRNA synthetase Nmar_0064 CENSYa_1925 64 52,088 52,927 279 r 1,890,979 1,891,821 280 r apurinic endonuclease Apn1 Nmar_0065 CENSYa_1926 59 53,013 54,038 341 f 1,891,958 1,892,971 337 f DNA primase, large subunit Nmar_0066 CENSYa_1927 53 54,038 55,159 373 f 1,892,964 1,894,082 372 f DNA primase small subunit Nmar_0067 CENSYa_1928 71 55,201 58,062 953 f 1,894,254 1,897,037 927 f conserved hypothetical protein Nmar_0068 CENSYa_1929 41 58,063 58,605 180 f 1,897,039 1,897,578 179 f glutamine amidotransferase class-I Nmar_0069 CENSYa_1930 50 58,640 59,602 320 f 1,897,613 1,898,572 319 f tetratricopeptide TPR_2 repeat protein Nmar_0070 CENSYa_1932 59 59,729 59,902 57 f 1,898,697 1,898,876 59 f hypothetical protein Nmar_0071 CENSYa_1934 60 60,101 60,514 137 f 1,899,102 1,899,503 133 f ribosomal protein S6e Nmar_0072 CENSYa_1935 74 60,546 61,808 420 f 1,899,621 1,900,799 392 f protein synthesis factor GTP-binding Nmar_0073 CENSYa_1936 40 61,801 62,169 122 f 1,900,831 1,901,166 111 f conserved hypothetical protein Nmar_0074 CENSYa_1937 53 62,205 62,654 149 f 1,901,192 1,901,644 150 f PEBP family protein Nmar_0075 CENSYa_1939 47 62,723 64,861 712 f 1,902,465 1,904,675 736 f dolichyl-diphosphooligosaccharide--protein glycotransferase Nmar_0077 CENSYa_1948 67 65,021 65,818 265 r 1,922,910 1,923,689 259 f RNA binding S1 domain protein Nmar_0078 CENSYa_1947 62 65,859 66,389 176 r 1,922,333 1,922,863 176 f cob(I)alamin adenosyltransferase Nmar_0079 CENSYa_1944 52 66,477 67,829 450 f 1,908,224 1,909,495 423 r cobyrinic acid a,c-diamide synthase Nmar_0080 CENSYa_1943 61 67,818 68,459 213 r 1,907,632 1,908,222 196 f precorrin-8X methylmutase CbiC/CobH Nmar_0081 CENSYa_1942 60 68,449 69,201 250 r 1,906,845 1,907,600 251 f cobalamin (vitamin B12) biosynthesis CbiX protein Nmar_0082 CENSYa_1941 58 69,198 70,250 350 r 1,905,805 1,906,848 347 f cobalamin (vitamin B12) biosynthesis CbiG protein Nmar_0083 CENSYa_1940 61 70,282 71,367 361 r 1,904,838 1,905,773 311 f cobalamin biosynthesis protein CbiD Nmar_0084 CENSYa_1949 35 71,458 72,327 289 f 1,923,956 1,924,705 249 f NAD-dependent epimerase/dehydratase Nmar_0085 CENSYa_1950 70 72,304 73,470 388 r 1,924,679 1,925,845 388 r methionine adenosyltransferase Nmar_0086 CENSYa_1951 80 73,486 73,731 81 r 1,925,860 1,926,180 106 r like-Sm ribonucleoprotein core Nmar_0087 CENSYa_1952 37 73,840 74,493 217 f 1,926,247 1,926,903 218 f RecA/RadA recombinase-like protein Nmar_0088 CENSYa_1953 66 74,592 77,333 913 f 1,927,046 1,929,784 912 f DEAD/DEAH box helicase domain protein Nmar_0089 CENSYa_1954 54 77,330 78,730 466 r 1,929,781 1,931,187 468 r nucleic acid binding OB-fold tRNA/helicase-type Nmar_0090 CENSYa_1955 66 78,944 79,882 312 f 1,931,295 1,932,236 313 f ABC transporter related Nmar_0091 CENSYa_1956 73 79,866 80,627 253 f 1,932,292 1,932,981 229 f ABC-2 type transporter Nmar_0092 CENSYa_0589 40 80,633 81,373 246 r 539,411 540,283 290 r UDP-glucose/GDP-mannose dehydrogenase Nmar_0093 CENSYa_1958 44 81,548 82,600 350 r 1,933,158 1,934,201 347 r protein of unknown function DUF354 Nmar_0094 CENSYa_1959 61 82,664 83,803 379 f 1,934,200 1,935,390 396 f hypothetical protein Nmar_0095 CENSYa_1960 46 83,839 84,402 187 f 1,935,423 1,935,986 187 f GrpE protein Nmar_0096 CENSYa_1961 79 84,405 86,315 636 f 1,935,989 1,937,959 656 f chaperone protein DnaK Nmar_0097 CENSYa_1962 65 86,365 87,450 361 f 1,937,993 1,939,048 351 f chaperone protein DnaJ Nmar_0099 CENSYa_1967 49 88,308 90,212 634 r 1,941,188 1,943,074 628 r putative aspartyl-tRNA(Asn) amidotransferase, B subunit Nmar_0100 CENSYa_1968 57 90,221 91,510 429 r 1,943,097 1,944,275 392 r glutamyl-tRNA(Gln) amidotransferase, subunit D
Page 1 and 2: Nitrosopumilus maritimus genome rev
Page 3 and 4: ammonia oxidation. There are two hy
Page 5 and 6: Fig. 3. Comparison of N. maritimus
Page 7 and 8: Supporting Information Walker et al
Page 9 and 10: Fig. S2. Archaeal ammonia monooxyge
Page 11 and 12: A. 0.1 B. 100 90 52 Other Supportin
Page 13 and 14: Supplemental Table 2: Predicted coo
Page 15 and 16: Supplemental Table 3: Gene predicti
Page 17: Nmar_tR26 1,630,610 1,630,537 ProGG
Page 21 and 22: Nmar_0258 CENSYa_1705 82 227,624 22
Page 29 and 30: Nmar_1303 CENSYa_0131 86 1,193,261
Page 35 and 36: Molybdopterin-guanine dinucleotide
Page 37 and 38: Nmar0935 DeepAntEC39 f 815,847 816,
Page 39 and 40: Nmar0101 EQ085329 r 91,543 93,711 A
Page 41 and 42: Nmar0436 EQ085799 f 386,930 387,319
Page 43 and 44: Nmar0982 EP710054 r 859,116 859,526
Page 45 and 46: Nmar1297 EQ086682 f 1,187,165 1,188

Nitrosopumilus maritimus genome reveals unique - de la Torre ...

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