The three-time Tour de France champion had been scheduled to take part in the men's road race at the Games on August 3, but it was announced on Monday he would not take part.
While Slovenia's Olympic cycling coach Uros Murn attributed Pogacar's absence to "extreme fatigue" after claiming his latest Tour title last week, the UAE Team Emirates superstar was back in action the following day at a criterium race in Surhuisterveen.
Questioned about his Paris decision by Dutch broadcaster NOS, Pogacar revealed his frustration at Zigart missing out on a place in the Slovenian squad.
"It's not the main reason, but it certainly didn't help," he said. "I think she deserves her place. She's a two-time national champion in the road race and time trial."
Urska Pintar and Eugenia Bujak were preferred to Zigart for the women's road race. Zigart won the national title in that event ahead of Pintar last month.
After finishing third in the general classification at the Tour de France, Carapaz produced a stunning ride just six days later in Japan
He crossed the line one minute and seven seconds clear of a distant chasing pack.
Silver in a sprint finish was secured by Belgium's Wout Van Aert and, barely the width of a tyre further back, bronze went to Slovenia's Tour champion Tadej Pogacar.
Carapaz, 28, adds the Olympic title to his 2019 Giro d'Italia triumph, and he slapped his handlebar, punched the air and clapped himself as he crossed the line.
The 234-kilometre race took in the lower slopes of Mount Fuji and a daunting ascent of Mikuni Pass that featured an average gradient of 10.6 per cent and sections that topped 20 per cent.
The riders finished on the Fuji International Speedway, in front of a crowd – being outside Tokyo, a limited number of spectators were allowed to watch the action.
Former Tour de France champion Geraint Thomas was involved in an early crash with Great Britain team-mate Tao Geoghegan Hart and subsequently abandoned the race.
Thomas later tweeted: "Think I must have done something bad in a previous life... Freak crash, Tao lost his front wheel and decked it in front of me. I had nowhere to go, other than the floor as well."
The Netherlands' Bauke Mollema was edged out of the medals in the sprint, finishing fourth, with fifth going to Canada's Michael Woods and sixth to American Brandon McNulty, who had joined Carapaz in a two-man break in the closing stages, only to drop off the champion's pace.
