Proteinquakes in the Evolution of Influenza Virus Hemagglutinin (A/H1N1) under Opposing Migration and Vaccination Pressures

<div>Sketch of chain A1 <svg height="13.2498pt" id="M49" style="vertical-align:-3.571899pt" version="1.1" viewbox="-0.0498162 -9.6779 53.4756 13.2498" width="53.4756pt" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink"><g transform="matrix(.0135,0,0,-0.0135,0,0)"><path d="M360 -163L167 270L360 703H298L106 273V267L298 -163H360Z" id="g113-61"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="413" vert-adv-y="413"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,5.595,0)"><path d="M642 419L635 448C586 435 552 411 532 392C518 379 509 351 496 304C484 260 462 196 445 150C424 93 388 40 314 30L413 508L406 510L344 491L257 36C205 46 175 84 175 169C175 195 180 241 185 277C189 304 190 331 190 358C190 413 175 448 141 448C111 448 69 429 23 373L30 347C51 365 68 375 81 375C93 375 108 368 108 327C108 307 104 268 101 239C98 211 95 180 95 155C95 33 159 -8 248 -14L213 -186C206 -220 221 -254 230 -261L261 -230L306 -11C339 -4 366 6 389 20C431 46 473 87 503 155C533 224 557 286 571 325C586 367 606 393 642 419Z" id="g113-245"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="654" vert-adv-y="654"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,14.458,0)"><path d="M300 -147C201 -63 143 98 143 270S200 602 300 686L282 710C136 610 70 450 70 271V270C70 89 136 -72 282 -170L300 -147Z" id="g113-41"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="346" vert-adv-y="346"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,19.146,0)"><path d="M433 39L423 65C413 59 399 54 387 54C370 54 352 69 352 114V299C352 352 342 392 307 422C285 440 255 449 225 449C168 437 102 399 75 379C56 365 44 353 44 339C44 315 69 296 87 296C101 296 111 303 116 319C124 349 133 371 145 385C156 397 171 404 190 404C241 404 275 364 275 291V274C253 256 180 229 120 209C65 190 39 159 39 110C39 47 88 -12 159 -12C189 -12 237 25 277 52C282 35 288 21 301 8C312 -3 333 -12 348 -12L433 39ZM275 84C256 65 221 48 195 48C164 48 124 73 124 124C124 161 146 180 185 198C206 208 254 229 275 240V84Z" id="g190-98"></path><glyph.data ascent="989" descent="-360" horiz-adv-x="439" vert-adv-y="439"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,25.094,0)"><path d="M433 39L423 65C413 59 399 54 387 54C370 54 352 69 352 114V299C352 352 342 392 307 422C285 440 255 449 225 449C168 437 102 399 75 379C56 365 44 353 44 339C44 315 69 296 87 296C101 296 111 303 116 319C124 349 133 371 145 385C156 397 171 404 190 404C241 404 275 364 275 291V274C253 256 180 229 120 209C65 190 39 159 39 110C39 47 88 -12 159 -12C189 -12 237 25 277 52C282 35 288 21 301 8C312 -3 333 -12 348 -12L433 39ZM275 84C256 65 221 48 195 48C164 48 124 73 124 124C124 161 146 180 185 198C206 208 254 229 275 240V84Z" id="g190-98"></path><glyph.data ascent="989" descent="-360" horiz-adv-x="439" vert-adv-y="439"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,31.086,0)"><path d="M95 130C70 130 46 113 46 88C46 72 54 64 59 64C93 55 121 33 121 -3C121 -41 93 -68 44 -88L55 -117C117 -98 186 -56 186 22C186 91 131 130 95 130Z" id="g113-45"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="228" vert-adv-y="228"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,36.446,0)"><path d="M384 0V27C293 34 287 42 287 114V635C232 613 172 594 109 583V559L157 557C201 555 205 550 205 499V114C205 42 199 34 109 27V0H384Z" id="g113-50"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="480" vert-adv-y="480"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,42.949,0)"><path d="M275 270C275 450 212 609 64 710L45 686C145 604 203 442 203 270S147 -63 45 -147L64 -170C213 -68 275 89 275 270Z" id="g113-42"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="346" vert-adv-y="346"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,47.637,0)"><path d="M307 267V273L115 703H53L246 270L53 -163H115L307 267Z" id="g113-63"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="413" vert-adv-y="413"></glyph.data></g></svg> evolution, with Fort Dix outbreak and swine flu peak (before vaccination program) indicated. The HA <svg height="13.2498pt" id="M50" style="vertical-align:-3.571899pt" version="1.1" viewbox="-0.0498162 -9.6779 53.4756 13.2498" width="53.4756pt" xmlns="http://www.w3.org/2000/svg" xmlns:xlink="http://www.w3.org/1999/xlink"><g transform="matrix(.0135,0,0,-0.0135,0,0)"><path d="M360 -163L167 270L360 703H298L106 273V267L298 -163H360Z" id="g113-61"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="413" vert-adv-y="413"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,5.595,0)"><path d="M642 419L635 448C586 435 552 411 532 392C518 379 509 351 496 304C484 260 462 196 445 150C424 93 388 40 314 30L413 508L406 510L344 491L257 36C205 46 175 84 175 169C175 195 180 241 185 277C189 304 190 331 190 358C190 413 175 448 141 448C111 448 69 429 23 373L30 347C51 365 68 375 81 375C93 375 108 368 108 327C108 307 104 268 101 239C98 211 95 180 95 155C95 33 159 -8 248 -14L213 -186C206 -220 221 -254 230 -261L261 -230L306 -11C339 -4 366 6 389 20C431 46 473 87 503 155C533 224 557 286 571 325C586 367 606 393 642 419Z" id="g113-245"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="654" vert-adv-y="654"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,14.458,0)"><path d="M300 -147C201 -63 143 98 143 270S200 602 300 686L282 710C136 610 70 450 70 271V270C70 89 136 -72 282 -170L300 -147Z" id="g113-41"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="346" vert-adv-y="346"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,19.146,0)"><path d="M433 39L423 65C413 59 399 54 387 54C370 54 352 69 352 114V299C352 352 342 392 307 422C285 440 255 449 225 449C168 437 102 399 75 379C56 365 44 353 44 339C44 315 69 296 87 296C101 296 111 303 116 319C124 349 133 371 145 385C156 397 171 404 190 404C241 404 275 364 275 291V274C253 256 180 229 120 209C65 190 39 159 39 110C39 47 88 -12 159 -12C189 -12 237 25 277 52C282 35 288 21 301 8C312 -3 333 -12 348 -12L433 39ZM275 84C256 65 221 48 195 48C164 48 124 73 124 124C124 161 146 180 185 198C206 208 254 229 275 240V84Z" id="g190-98"></path><glyph.data ascent="989" descent="-360" horiz-adv-x="439" vert-adv-y="439"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,25.094,0)"><path d="M433 39L423 65C413 59 399 54 387 54C370 54 352 69 352 114V299C352 352 342 392 307 422C285 440 255 449 225 449C168 437 102 399 75 379C56 365 44 353 44 339C44 315 69 296 87 296C101 296 111 303 116 319C124 349 133 371 145 385C156 397 171 404 190 404C241 404 275 364 275 291V274C253 256 180 229 120 209C65 190 39 159 39 110C39 47 88 -12 159 -12C189 -12 237 25 277 52C282 35 288 21 301 8C312 -3 333 -12 348 -12L433 39ZM275 84C256 65 221 48 195 48C164 48 124 73 124 124C124 161 146 180 185 198C206 208 254 229 275 240V84Z" id="g190-98"></path><glyph.data ascent="989" descent="-360" horiz-adv-x="439" vert-adv-y="439"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,31.086,0)"><path d="M95 130C70 130 46 113 46 88C46 72 54 64 59 64C93 55 121 33 121 -3C121 -41 93 -68 44 -88L55 -117C117 -98 186 -56 186 22C186 91 131 130 95 130Z" id="g113-45"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="228" vert-adv-y="228"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,36.446,0)"><path d="M384 0V27C293 34 287 42 287 114V635C232 613 172 594 109 583V559L157 557C201 555 205 550 205 499V114C205 42 199 34 109 27V0H384Z" id="g113-50"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="480" vert-adv-y="480"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,42.949,0)"><path d="M275 270C275 450 212 609 64 710L45 686C145 604 203 442 203 270S147 -63 45 -147L64 -170C213 -68 275 89 275 270Z" id="g113-42"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="346" vert-adv-y="346"></glyph.data></g><g transform="matrix(.0135,0,0,-0.0135,47.637,0)"><path d="M307 267V273L115 703H53L246 270L53 -163H115L307 267Z" id="g113-63"></path><glyph.data ascent="3473" descent="-2876" horiz-adv-x="413" vert-adv-y="413"></glyph.data></g></svg> trends seen here parallel those for NA tabulated in [<a href="/journals/bmri/2015/243162/#B5">5</a>].</div>

BioMed Research International

fig5

Figure 5

Figure 5: Proteinquakes in the Evolution of Influenza Virus Hemagglutinin (A/H1N1) under Opposing Migration and Vaccination Pressures 